NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|442616191|ref|NP_001259506|]
View 

comatose, isoform B [Drosophila melanogaster]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 219-395 3.69e-128

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


:

Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 378.37  E-value: 3.69e-128
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 219 GIGGLDKEFNSIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPQILDKYVGES 298
Cdd:cd19504    1 GIGGLDKEFSDIFRRAFASRVFPPEIVEQLGCKHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGES 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 299 EANVRRLFAEAEEEEKRLGPNSGLHIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDM 378
Cdd:cd19504   81 EANIRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDL 160

                        170
                 ....*....|....*..
gi 442616191 379 IDEALLRPGRLEVQMEI 395
Cdd:cd19504  161 IDEALLRPGRLEVQMEI 177
CDC48 super family cl36852
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 220-606 1.21e-61

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


The actual alignment was detected with superfamily member TIGR01243:

Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 220.55  E-value: 1.21e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESE 299
Cdd:TIGR01243 180 IGGLKEAKEKI-REMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISI-NGPEIMSKYYGESE 257

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  300 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMI 379
Cdd:TIGR01243 258 ERLREIFKEAEEN----APS----IIFIDEIDAIAPKREEVTGE--VEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDAL 327

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  380 DEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSAMNRLIKa 459
Cdd:TIGR01243 328 DPALRRPGRFDREIVIRVPDKRARKEILKVHTRNM----PLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIR- 402

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  460 daKVTVDPEA-------MEKLKVNRDDFLHSLEhDIKPAfgTAQEILDNMLArgvINWgapvsnllED--GMLYVQQA-- 528
Cdd:TIGR01243 403 --EGKINFEAeeipaevLKELKVTMKDFMEALK-MVEPS--AIREVLVEVPN---VRW--------SDigGLEEVKQElr 466

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  529 -------KAPESSGLV------SVLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDM---VGYTESAkclhIRKIFDDA 592
Cdd:TIGR01243 467 eavewplKHPEIFEKMgirppkGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILskwVGESEKA----IREIFRKA 542

                         410
                  ....*....|....
gi 442616191  593 YRSMLSCIVVDNVE 606
Cdd:TIGR01243 543 RQAAPAIIFFDEID 556
CDC48_N smart01073
Cell division protein 48 (CDC48) N-terminal domain; This domain has a double psi-beta barrel ...
 5-83 1.38e-14

Cell division protein 48 (CDC48) N-terminal domain; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases is a substrate 185-residue recognition domain.


:

Pssm-ID: 215012 [Multi-domain]  Cd Length: 82  Bit Score: 69.18  E-value: 1.38e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191     5 LKATKCPTDELSLTNRAIVNVGDFPE-EIKYADISPAPGQHFIFALEK--TVEVPSGYVGFSLVQRKWAMVSINQELEVR 81
Cdd:smart01073   1 LRVAEAPSDEDVGRGIARLSPEDMDElGLFPGDYVLITGKRRTVAIVWpaYPEDPGGIIRIDGVQRKNAGVSIGDTVTVR 80


                   ..
gi 442616191    82 PY 83
Cdd:smart01073  81 KA 82
SpoVK super family cl33891
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 526-702 5.85e-07

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


The actual alignment was detected with superfamily member COG0464:

Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 52.61  E-value: 5.85e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 526 QQAKAPESSGLV---SVLVAGAPNSGKTALAAQLAKMSDFPFVKVcSPEDMVG-YT-ESAKclHIRKIFDDAyRSMLSCI 600
Cdd:COG0464  178 KRPELREEYGLPpprGLLLYGPPGTGKTLLARALAGELGLPLIEV-DLSDLVSkYVgETEK--NLREVFDKA-RGLAPCV 253

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 601 V-VDNVERLL-DYGSIGPRYSNMTLQALLVLLKKQPPKGrklLILCTSSRREVLEEmEMLTAFTSVLHVPnlsKPDhvla 678
Cdd:COG0464  254 LfIDEADALAgKRGEVGDGVGRRVVNTLLTEMEELRSDV---VVIAATNRPDLLDP-ALLRRFDEIIFFP---LPD---- 322

                        170       180
                 ....*....|....*....|....
gi 442616191 679 vlentdifsKGEIQAIGKKMAGKR 702
Cdd:COG0464  323 ---------AEERLEIFRIHLRKR 337
CDC48_2 smart01072
Cell division protein 48 (CDC48) domain 2; This domain has a double psi-beta barrel fold and ...
 111-158 1.22e-05

Cell division protein 48 (CDC48) domain 2; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C-terminus. The VAT-N domain found in AAA ATPases is a substrate 185-residue recognition domain.


:

Pssm-ID: 215011  Cd Length: 64  Bit Score: 43.36  E-value: 1.22e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 442616191   111 PYDSDqMAKEFIMQFAGMALTVGQSLVFNFKDkKLLGLAVKSLEAIDP 158
Cdd:smart01072   1 PFDGD-FAEYVKRKLLGRPVTKGDTIVVPFLG-KALPFVVVSTEPSGP 46
 
Name Accession Description Interval E-value
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 219-395 3.69e-128

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 378.37  E-value: 3.69e-128
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 219 GIGGLDKEFNSIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPQILDKYVGES 298
Cdd:cd19504    1 GIGGLDKEFSDIFRRAFASRVFPPEIVEQLGCKHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGES 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 299 EANVRRLFAEAEEEEKRLGPNSGLHIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDM 378
Cdd:cd19504   81 EANIRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDL 160

                        170
                 ....*....|....*..
gi 442616191 379 IDEALLRPGRLEVQMEI 395
Cdd:cd19504  161 IDEALLRPGRLEVQMEI 177
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 220-479 4.86e-75

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 245.69  E-value: 4.86e-75
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFasrVFP---PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNArePKI-VNGPQILDKYV 295
Cdd:COG1222   80 IGGLDEQIEEI-REAV---ELPlknPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGA--PFIrVRGSELVSKYI 153

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 296 GESEANVRRLFAEAEEEEKRlgpnsglhIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNR 375
Cdd:COG1222  154 GEGARNVREVFELAREKAPS--------IIFIDEIDAIAARRTD-DGTSGEVQRTVNQLLAELDGFESRGDVLIIAATNR 224

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 376 RDMIDEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAqssAMNR 455
Cdd:COG1222  225 PDLLDPALLRPGRFDRVIEVPLPDEEAREEILKIHLRDM----PLADDVDLDKLAKLTEGFSGADLKAIVTEA---GMFA 297

                        250       260
                 ....*....|....*....|....*.
gi 442616191 456 LIKADAKVTVDP--EAMEKLKVNRDD 479
Cdd:COG1222  298 IREGRDTVTMEDleKAIEKVKKKTET 323
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 220-606 1.21e-61

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 220.55  E-value: 1.21e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESE 299
Cdd:TIGR01243 180 IGGLKEAKEKI-REMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISI-NGPEIMSKYYGESE 257

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  300 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMI 379
Cdd:TIGR01243 258 ERLREIFKEAEEN----APS----IIFIDEIDAIAPKREEVTGE--VEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDAL 327

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  380 DEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSAMNRLIKa 459
Cdd:TIGR01243 328 DPALRRPGRFDREIVIRVPDKRARKEILKVHTRNM----PLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIR- 402

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  460 daKVTVDPEA-------MEKLKVNRDDFLHSLEhDIKPAfgTAQEILDNMLArgvINWgapvsnllED--GMLYVQQA-- 528
Cdd:TIGR01243 403 --EGKINFEAeeipaevLKELKVTMKDFMEALK-MVEPS--AIREVLVEVPN---VRW--------SDigGLEEVKQElr 466

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  529 -------KAPESSGLV------SVLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDM---VGYTESAkclhIRKIFDDA 592
Cdd:TIGR01243 467 eavewplKHPEIFEKMgirppkGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILskwVGESEKA----IREIFRKA 542

                         410
                  ....*....|....
gi 442616191  593 YRSMLSCIVVDNVE 606
Cdd:TIGR01243 543 RQAAPAIIFFDEID 556
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 165-491 1.01e-55

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 203.60  E-value: 1.01e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  165 KDTAMRNVRfgRILGNTVVQFEKAENSSLNLQG--------KSKGKVVRQSII--------NPDWDfgkmGIGGLDkEFN 228
Cdd:TIGR01243 390 KEAAMAALR--RFIREGKINFEAEEIPAEVLKElkvtmkdfMEALKMVEPSAIrevlvevpNVRWS----DIGGLE-EVK 462

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  229 SIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAE 308
Cdd:TIGR01243 463 QELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIA-VRGPEILSKWVGESEKAIREIFRK 541

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  309 AEEeekrlgpnSGLHIIIFDEIDAICKQRGSVAGNSgVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGR 388
Cdd:TIGR01243 542 ARQ--------AAPAIIFFDEIDAIAPARGARFDTS-VTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGR 612

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  389 LEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSAMNRLIKADAKVTVDPE 468
Cdd:TIGR01243 613 FDRLILVPPPDEEARKEIFKIHTRSM----PLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVG 688

                         330       340
                  ....*....|....*....|....*.
gi 442616191  469 AME---KLKVNRDDFLHSLEhDIKPA 491
Cdd:TIGR01243 689 EEEflkDLKVEMRHFLEALK-KVKPS 713
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 220-479 1.09e-53

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 190.04  E-value: 1.09e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 299
Cdd:PRK03992 133 IGGLEEQIREV-REAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV-GSELVQKFIGEGA 210

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 300 ANVRRLFAEAEEEEkrlgPNsglhiIIF-DEIDAICKQRgSVAGNSG---VHDTVVnQLLTKIDGVDQLNNILVIGMTNR 375
Cdd:PRK03992 211 RLVRELFELAREKA----PS-----IIFiDEIDAIAAKR-TDSGTSGdreVQRTLM-QLLAEMDGFDPRGNVKIIAATNR 279

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 376 RDMIDEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAqssAMNR 455
Cdd:PRK03992 280 IDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM----NLADDVDLEELAELTEGASGADLKAICTEA---GMFA 352

                        250       260
                 ....*....|....*....|....*.
gi 442616191 456 LIKADAKVTVDP--EAMEKLKVNRDD 479
Cdd:PRK03992 353 IRDDRTEVTMEDflKAIEKVMGKEEK 378
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 256-397 3.09e-39

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 141.19  E-value: 3.09e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  256 ILLYGPPGTGKTLMARQIGTMLNArEPKIVNGPQILDKYVGESEANVRRLFAEAEEeekrlgpnSGLHIIIFDEIDAICK 335
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGA-PFIEISGSELVSKYVGESEKRLRELFEAAKK--------LAPCVIFIDEIDALAG 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 442616191  336 QRGSvaGNSGVHDTVVNQLLTKIDGVDQL-NNILVIGMTNRRDMIDEALLrpGRLEVQMEISL 397
Cdd:pfam00004  72 SRGS--GGDSESRRVVNQLLTELDGFTSSnSKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
CDC48_N smart01073
Cell division protein 48 (CDC48) N-terminal domain; This domain has a double psi-beta barrel ...
 5-83 1.38e-14

Cell division protein 48 (CDC48) N-terminal domain; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases is a substrate 185-residue recognition domain.


Pssm-ID: 215012 [Multi-domain]  Cd Length: 82  Bit Score: 69.18  E-value: 1.38e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191     5 LKATKCPTDELSLTNRAIVNVGDFPE-EIKYADISPAPGQHFIFALEK--TVEVPSGYVGFSLVQRKWAMVSINQELEVR 81
Cdd:smart01073   1 LRVAEAPSDEDVGRGIARLSPEDMDElGLFPGDYVLITGKRRTVAIVWpaYPEDPGGIIRIDGVQRKNAGVSIGDTVTVR 80


                   ..
gi 442616191    82 PY 83
Cdd:smart01073  81 KA 82
CDC48_N pfam02359
Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel ...
 4-85 1.35e-13

Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases pfam00004 is a substrate 185-residue recognition domain.


Pssm-ID: 426738  Cd Length: 85  Bit Score: 66.45  E-value: 1.35e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191    4 ILKATKCPtDELSLTNRAIVNVGDFPE-EIKYADISPAPGQH----FIFALEKTVEVPsGYVGFSLVQRKWAMVSINQEL 78
Cdd:pfam02359   1 RLRVAEAP-DRDVGRGIARLNPEDMEElGLFPGDVVEIKGKRktvaIVWSAYPEDEGP-GIIRMDGVTRKNAGVSIGDTV 78


                  ....*..
gi 442616191   79 EVRPYRF 85
Cdd:pfam02359  79 TVRPAEV 85
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 539-668 2.24e-12

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 64.54  E-value: 2.24e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDMVGYT-ESAKclHIRKIFDDAYRSMLSCIVVDNVERLL-DYGSIGP 616
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVgESEK--RLRELFEAAKKLAPCVIFIDEIDALAgSRGSGGD 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 442616191  617 RYSNMTLQALLVLLKKQPPKGRKLLILCTSSRREVLEEmEMLTAFTSVLHVP 668
Cdd:pfam00004  79 SESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDP-ALLGRFDRIIEFP 129
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 254-399 2.27e-12

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 65.09  E-value: 2.27e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191   254 KGILLYGPPGTGKTLMARQIGTMLNAREPKIV----------------NGPQILDKYVGESEANVRRLFAEAEEEEKRlg 317
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARELGPPGGGVIyidgedileevldqllLIIVGGKKASGSGELRLRLALALARKLKPD-- 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191   318 pnsglhIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLtkidgvdQLNNILVIGMTNRRDMIDEALLRPgRLEVQMEISL 397
Cdd:smart00382  81 ------VLILDEITSLLDAEQEALLLLLEELRLLLLLK-------SEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLL 146


                   ..
gi 442616191   398 PN 399
Cdd:smart00382 147 IL 148
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 518-654 4.94e-10

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 58.83  E-value: 4.94e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 518 LEDGMLYVQQAKAPESSGLV---SVLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDM---VGYTESAkclhIRKIFDD 591
Cdd:cd19481    5 LREAVEAPRRGSRLRRYGLGlpkGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLskyVGESEKN----LRKIFER 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 442616191 592 AyRSMLSCIVV-DNVERLL---DYGSiGPRYSNMTLQALLVLLKKQPPKGrKLLILCTSSRREVLEE 654
Cdd:cd19481   81 A-RRLAPCILFiDEIDAIGrkrDSSG-ESGELRRVLNQLLTELDGVNSRS-KVLVIAATNRPDLLDP 144
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 526-702 5.85e-07

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 52.61  E-value: 5.85e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 526 QQAKAPESSGLV---SVLVAGAPNSGKTALAAQLAKMSDFPFVKVcSPEDMVG-YT-ESAKclHIRKIFDDAyRSMLSCI 600
Cdd:COG0464  178 KRPELREEYGLPpprGLLLYGPPGTGKTLLARALAGELGLPLIEV-DLSDLVSkYVgETEK--NLREVFDKA-RGLAPCV 253

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 601 V-VDNVERLL-DYGSIGPRYSNMTLQALLVLLKKQPPKGrklLILCTSSRREVLEEmEMLTAFTSVLHVPnlsKPDhvla 678
Cdd:COG0464  254 LfIDEADALAgKRGEVGDGVGRRVVNTLLTEMEELRSDV---VVIAATNRPDLLDP-ALLRRFDEIIFFP---LPD---- 322

                        170       180
                 ....*....|....*....|....
gi 442616191 679 vlentdifsKGEIQAIGKKMAGKR 702
Cdd:COG0464  323 ---------AEERLEIFRIHLRKR 337
CDC48_2 smart01072
Cell division protein 48 (CDC48) domain 2; This domain has a double psi-beta barrel fold and ...
 111-158 1.22e-05

Cell division protein 48 (CDC48) domain 2; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C-terminus. The VAT-N domain found in AAA ATPases is a substrate 185-residue recognition domain.


Pssm-ID: 215011  Cd Length: 64  Bit Score: 43.36  E-value: 1.22e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 442616191   111 PYDSDqMAKEFIMQFAGMALTVGQSLVFNFKDkKLLGLAVKSLEAIDP 158
Cdd:smart01072   1 PFDGD-FAEYVKRKLLGRPVTKGDTIVVPFLG-KALPFVVVSTEPSGP 46
BREX_3_BrxF NF033453
BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino ...
 539-610 3.07e-03

BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino acids in length includes BrxF from type 3 BREX (bacteriophage exclusion) systems. Most members have the P-loop motif GxxGxGKT, but the region is surprisingly poorly conserved in a sizable fraction of otherwise strongly similar proteins.


Pssm-ID: 468038  Cd Length: 149  Bit Score: 38.63  E-value: 3.07e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 442616191 539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCS--PEDMVGYTESAKCLHIRKIFDD-AYRSMLSCIVVDNVERLLD 610
Cdd:NF033453  19 ILLVGPPGSGKTALLRELAAKRGAPVINVNLelSRRLLELPEKQRALRAPRLLDEiAEKSSGDVVLLDNIEILFD 93
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
518-601 7.41e-03

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 38.71  E-value: 7.41e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 518 LEDGMLYVQQAKAPESSGLV---SVLVAGAPNSGKTALAAQLAKMSDFPFVKVcSPEDMVG-YT-ESAKclHIRKIFDDA 592
Cdd:COG1223   14 LKLIIKELRRRENLRKFGLWpprKILFYGPPGTGKTMLAEALAGELKLPLLTV-RLDSLIGsYLgETAR--NLRKLFDFA 90


                 ....*....
gi 442616191 593 YRsmLSCIV 601
Cdd:COG1223   91 RR--APCVI 97
 
Name Accession Description Interval E-value
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 219-395 3.69e-128

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 378.37  E-value: 3.69e-128
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 219 GIGGLDKEFNSIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPQILDKYVGES 298
Cdd:cd19504    1 GIGGLDKEFSDIFRRAFASRVFPPEIVEQLGCKHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGES 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 299 EANVRRLFAEAEEEEKRLGPNSGLHIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDM 378
Cdd:cd19504   81 EANIRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDL 160

                        170
                 ....*....|....*..
gi 442616191 379 IDEALLRPGRLEVQMEI 395
Cdd:cd19504  161 IDEALLRPGRLEVQMEI 177
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 220-479 4.86e-75

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 245.69  E-value: 4.86e-75
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFasrVFP---PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNArePKI-VNGPQILDKYV 295
Cdd:COG1222   80 IGGLDEQIEEI-REAV---ELPlknPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGA--PFIrVRGSELVSKYI 153

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 296 GESEANVRRLFAEAEEEEKRlgpnsglhIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNR 375
Cdd:COG1222  154 GEGARNVREVFELAREKAPS--------IIFIDEIDAIAARRTD-DGTSGEVQRTVNQLLAELDGFESRGDVLIIAATNR 224

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 376 RDMIDEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAqssAMNR 455
Cdd:COG1222  225 PDLLDPALLRPGRFDRVIEVPLPDEEAREEILKIHLRDM----PLADDVDLDKLAKLTEGFSGADLKAIVTEA---GMFA 297

                        250       260
                 ....*....|....*....|....*.
gi 442616191 456 LIKADAKVTVDP--EAMEKLKVNRDD 479
Cdd:COG1222  298 IREGRDTVTMEDleKAIEKVKKKTET 323
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 220-606 1.21e-61

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 220.55  E-value: 1.21e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESE 299
Cdd:TIGR01243 180 IGGLKEAKEKI-REMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISI-NGPEIMSKYYGESE 257

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  300 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMI 379
Cdd:TIGR01243 258 ERLREIFKEAEEN----APS----IIFIDEIDAIAPKREEVTGE--VEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDAL 327

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  380 DEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSAMNRLIKa 459
Cdd:TIGR01243 328 DPALRRPGRFDREIVIRVPDKRARKEILKVHTRNM----PLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIR- 402

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  460 daKVTVDPEA-------MEKLKVNRDDFLHSLEhDIKPAfgTAQEILDNMLArgvINWgapvsnllED--GMLYVQQA-- 528
Cdd:TIGR01243 403 --EGKINFEAeeipaevLKELKVTMKDFMEALK-MVEPS--AIREVLVEVPN---VRW--------SDigGLEEVKQElr 466

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  529 -------KAPESSGLV------SVLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDM---VGYTESAkclhIRKIFDDA 592
Cdd:TIGR01243 467 eavewplKHPEIFEKMgirppkGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILskwVGESEKA----IREIFRKA 542

                         410
                  ....*....|....
gi 442616191  593 YRSMLSCIVVDNVE 606
Cdd:TIGR01243 543 RQAAPAIIFFDEID 556
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 220-485 7.11e-56

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 196.67  E-value: 7.11e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIFRRAFASRVFPpELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNArePKI-VNGPQILDKYVGES 298
Cdd:COG0464  159 LGGLEEVKEELRELVALPLKRP-ELREEYGLPPPRGLLLYGPPGTGKTLLARALAGELGL--PLIeVDLSDLVSKYVGET 235

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 299 EANVRRLFAEAEEEEKrlgpnsglHIIIFDEIDAICKQRGSVagNSGVHDTVVNQLLTKIDGVDqlNNILVIGMTNRRDM 378
Cdd:COG0464  236 EKNLREVFDKARGLAP--------CVLFIDEADALAGKRGEV--GDGVGRRVVNTLLTEMEELR--SDVVVIAATNRPDL 303

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 379 IDEALLRpgRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSAMnrlik 458
Cdd:COG0464  304 LDPALLR--RFDEIIFFPLPDAEERLEIFRIHLRKR----PLDEDVDLEELAEATEGLSGADIRNVVRRAALQAL----- 372

                        250       260
                 ....*....|....*....|....*..
gi 442616191 459 adakvtvdpeAMEKLKVNRDDFLHSLE 485
Cdd:COG0464  373 ----------RLGREPVTTEDLLEALE 389
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 165-491 1.01e-55

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 203.60  E-value: 1.01e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  165 KDTAMRNVRfgRILGNTVVQFEKAENSSLNLQG--------KSKGKVVRQSII--------NPDWDfgkmGIGGLDkEFN 228
Cdd:TIGR01243 390 KEAAMAALR--RFIREGKINFEAEEIPAEVLKElkvtmkdfMEALKMVEPSAIrevlvevpNVRWS----DIGGLE-EVK 462

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  229 SIFRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAE 308
Cdd:TIGR01243 463 QELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIA-VRGPEILSKWVGESEKAIREIFRK 541

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  309 AEEeekrlgpnSGLHIIIFDEIDAICKQRGSVAGNSgVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGR 388
Cdd:TIGR01243 542 ARQ--------AAPAIIFFDEIDAIAPARGARFDTS-VTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGR 612

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  389 LEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSAMNRLIKADAKVTVDPE 468
Cdd:TIGR01243 613 FDRLILVPPPDEEARKEIFKIHTRSM----PLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKEKLEVG 688

                         330       340
                  ....*....|....*....|....*.
gi 442616191  469 AME---KLKVNRDDFLHSLEhDIKPA 491
Cdd:TIGR01243 689 EEEflkDLKVEMRHFLEALK-KVKPS 713
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 220-479 1.09e-53

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 190.04  E-value: 1.09e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 299
Cdd:PRK03992 133 IGGLEEQIREV-REAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV-GSELVQKFIGEGA 210

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 300 ANVRRLFAEAEEEEkrlgPNsglhiIIF-DEIDAICKQRgSVAGNSG---VHDTVVnQLLTKIDGVDQLNNILVIGMTNR 375
Cdd:PRK03992 211 RLVRELFELAREKA----PS-----IIFiDEIDAIAAKR-TDSGTSGdreVQRTLM-QLLAEMDGFDPRGNVKIIAATNR 279

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 376 RDMIDEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAqssAMNR 455
Cdd:PRK03992 280 IDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM----NLADDVDLEELAELTEGASGADLKAICTEA---GMFA 352

                        250       260
                 ....*....|....*....|....*.
gi 442616191 456 LIKADAKVTVDP--EAMEKLKVNRDD 479
Cdd:PRK03992 353 IRDDRTEVTMEDflKAIEKVMGKEEK 378
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 219-395 8.36e-50

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 172.09  E-value: 8.36e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 219 GIGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKY 294
Cdd:cd19503    1 DIGGLDEQIASL-KELIELPLKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAV-----ANEAGAnflsISGPSIVSKY 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 295 VGESEANVRRLFAEAEEeekrLGPNsglhIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTN 374
Cdd:cd19503   75 LGESEKNLREIFEEARS----HAPS----IIFIDEIDALAPKREE--DQREVERRVVAQLLTLMDGMSSRGKVVVIAATN 144

                        170       180
                 ....*....|....*....|.
gi 442616191 375 RRDMIDEALLRPGRLEVQMEI 395
Cdd:cd19503  145 RPDAIDPALRRPGRFDREVEI 165
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 229-395 2.41e-48

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 167.46  E-value: 2.41e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 229 SIFRRAFASRVFPPelVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNArEPKIVNGPQILDKYVGESEANVRRLFAE 308
Cdd:cd19481    4 SLREAVEAPRRGSR--LRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGL-PLIVVKLSSLLSKYVGESEKNLRKIFER 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 309 AEeeekRLGPnsglHIIIFDEIDAICKQRGSVaGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGR 388
Cdd:cd19481   81 AR----RLAP----CILFIDEIDAIGRKRDSS-GESGELRRVLNQLLTELDGVNSRSKVLVIAATNRPDLLDPALLRPGR 151


                 ....*..
gi 442616191 389 LEVQMEI 395
Cdd:cd19481  152 FDEVIEF 158
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 242-390 2.95e-48

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 167.46  E-value: 2.95e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 242 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFAEAEeeekrlg 317
Cdd:cd19511   16 PDAFKRLGIRPPKGVLLYGPPGCGKTLLAKAL-----ASEAGLnfisVKGPELFSKYVGESERAVREIFQKAR------- 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 442616191 318 pNSGLHIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLE 390
Cdd:cd19511   84 -QAAPCIIFFDEIDSLAPRRGQ-SDSSGVTDRVVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRPGRLD 154
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 242-395 6.93e-47

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 163.82  E-value: 6.93e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 242 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAEAeeeeKRLGPNsg 321
Cdd:cd19529   16 PEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFIS-VKGPELLSKWVGESEKAIREIFRKA----RQVAPC-- 88

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 442616191 322 lhIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLEVQMEI 395
Cdd:cd19529   89 --VIFFDEIDSIAPRRGT-TGDSGVTERVVNQLLTELDGLEEMNGVVVIAATNRPDIIDPALLRAGRFDRLIYI 159
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 211-410 9.41e-47

proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity. [Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 200312 [Multi-domain]  Cd Length: 512  Bit Score: 174.13  E-value: 9.41e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  211 PDWDFGKmgIGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAR-------EPK 283
Cdd:TIGR03689 177 PDVTYAD--IGGLGSQIEQI-RDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANSLAARigaegggKSY 253

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  284 IVN--GPQILDKYVGESEANVRRLFAEAEEEEKRLGPNsglhIIIFDEIDAICKQRGSvAGNSGVHDTVVNQLLTKIDGV 361
Cdd:TIGR03689 254 FLNikGPELLNKYVGETERQIRLIFQRAREKASEGRPV----IVFFDEMDSLFRTRGS-GVSSDVETTVVPQLLAEIDGV 328

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 442616191  362 DQLNNILVIGMTNRRDMIDEALLRPGRLEVQMEISLPNEQGRVQILNIH 410
Cdd:TIGR03689 329 ESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFAKY 377
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 242-448 6.22e-45

ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273520 [Multi-domain]  Cd Length: 495  Bit Score: 168.62  E-value: 6.22e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  242 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFAEAeeeeKRLG 317
Cdd:TIGR01241  77 PSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAV-----AGEAGVpffsISGSDFVEMFVGVGASRVRDLFEQA----KKNA 147

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  318 PNsglhIIIFDEIDAICKQRGsvAGNSGVHDTV---VNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLEVQME 394
Cdd:TIGR01241 148 PC----IIFIDEIDAVGRQRG--AGLGGGNDEReqtLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVV 221

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 442616191  395 ISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAA 448
Cdd:TIGR01241 222 VDLPDIKGREEILKVHAKNK----KLAPDVDLKAVARRTPGFSGADLANLLNEA 271
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 239-390 1.62e-43

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 154.59  E-value: 1.62e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 239 VFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAEAEEeekrlgp 318
Cdd:cd19528   13 VEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFIS-VKGPELLTMWFGESEANVRDIFDKARA------- 84

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 442616191 319 nSGLHIIIFDEIDAICKQRG-SVAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLE 390
Cdd:cd19528   85 -AAPCVLFFDELDSIAKARGgNIGDAGGAADRVINQILTEMDGMNTKKNVFIIGATNRPDIIDPAILRPGRLD 156
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
243-452 2.43e-43

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 156.97  E-value: 2.43e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 243 ELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPK----IVNGPQILDKYVGESEANVRRLFAEAEEEEKrlgp 318
Cdd:COG1223   25 ENLRKFGLWPPRKILFYGPPGTGKTMLAEAL-----AGELKlpllTVRLDSLIGSYLGETARNLRKLFDFARRAPC---- 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 319 nsglhIIIFDEIDAICKQRGSVAGNSGVHDtVVNQLLTKIDGVDqlNNILVIGMTNRRDMIDEALLRpgRLEVQMEISLP 398
Cdd:COG1223   96 -----VIFFDEFDAIAKDRGDQNDVGEVKR-VVNALLQELDGLP--SGSVVIAATNHPELLDSALWR--RFDEVIEFPLP 165

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 442616191 399 NEQGRVQILnihTKRMREFnKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSA 452
Cdd:COG1223  166 DKEERKEIL---ELNLKKF-PLPFELDLKKLAKKLEGLSGADIEKVLKTALKKA 215
ftsH CHL00176
cell division protein; Validated
 220-473 1.67e-41

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 160.99  E-value: 1.67e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLD---KEFNSIfrrafASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTmlNAREPKI-VNGPQILDKYV 295
Cdd:CHL00176 185 IAGIEeakEEFEEV-----VSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG--EAEVPFFsISGSEFVEMFV 257

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 296 GESEANVRRLFAEAEEeekrlgpNSGLhIIIFDEIDAICKQRGS-VAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTN 374
Cdd:CHL00176 258 GVGAARVRDLFKKAKE-------NSPC-IVFIDEIDAVGRQRGAgIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATN 329

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 375 RRDMIDEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRmrefNKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSAMN 454
Cdd:CHL00176 330 RVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN----KKLSPDVSLELIARRTPGFSGADLANLLNEAAILTAR 405

                        250
                 ....*....|....*....
gi 442616191 455 RLIKADAKVTVDpEAMEKL 473
Cdd:CHL00176 406 RKKATITMKEID-TAIDRV 423
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 220-395 6.32e-41

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 147.20  E-value: 6.32e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREpKIVNGPQILDKYVGESE 299
Cdd:cd19519    2 IGGCRKQLAQI-REMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETGAFF-FLINGPEIMSKLAGESE 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 300 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMI 379
Cdd:cd19519   80 SNLRKAFEEAEKN----APA----IIFIDEIDAIAPKREKTHGE--VERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSI 149

                        170
                 ....*....|....*.
gi 442616191 380 DEALLRPGRLEVQMEI 395
Cdd:cd19519  150 DPALRRFGRFDREIDI 165
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
247-448 2.69e-40

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 156.74  E-value: 2.69e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 247 QLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFAEAeeeeKRLGPnsgl 322
Cdd:COG0465  169 RLGAKIPKGVLLVGPPGTGKTLLAKAV-----AGEAGVpffsISGSDFVEMFVGVGASRVRDLFEQA----KKNAP---- 235

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 323 hIIIF-DEIDAICKQRGsvAGNSGVHD----TVvNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLEVQMEISL 397
Cdd:COG0465  236 -CIIFiDEIDAVGRQRG--AGLGGGHDereqTL-NQLLVEMDGFEGNEGVIVIAATNRPDVLDPALLRPGRFDRQVVVDL 311

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 442616191 398 PNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLV-RAA 448
Cdd:COG0465  312 PDVKGREAILKVHARKK----PLAPDVDLEVIARRTPGFSGADLANLVnEAA 359
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 220-395 1.00e-39

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 144.02  E-value: 1.00e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 299
Cdd:cd19502    5 IGGLDEQIREI-REVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVV-GSELVQKYIGEGA 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 300 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQR--GSVAGNSGVHDTVVnQLLTKIDGVDQLNNILVIGMTNRRD 377
Cdd:cd19502   83 RLVRELFEMAREK----APS----IIFIDEIDAIGAKRfdSGTGGDREVQRTML-ELLNQLDGFDPRGNIKVIMATNRPD 153

                        170
                 ....*....|....*...
gi 442616191 378 MIDEALLRPGRLEVQMEI 395
Cdd:cd19502  154 ILDPALLRPGRFDRKIEF 171
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 256-397 3.09e-39

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 141.19  E-value: 3.09e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  256 ILLYGPPGTGKTLMARQIGTMLNArEPKIVNGPQILDKYVGESEANVRRLFAEAEEeekrlgpnSGLHIIIFDEIDAICK 335
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGA-PFIEISGSELVSKYVGESEKRLRELFEAAKK--------LAPCVIFIDEIDALAG 71

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 442616191  336 QRGSvaGNSGVHDTVVNQLLTKIDGVDQL-NNILVIGMTNRRDMIDEALLrpGRLEVQMEISL 397
Cdd:pfam00004  72 SRGS--GGDSESRRVVNQLLTELDGFTSSnSKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 242-390 5.13e-39

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 141.80  E-value: 5.13e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 242 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKiVNGPQILDKYVGESEANVRRLFAEAEEEEKrlgpnsg 321
Cdd:cd19526   16 PKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFIS-VKGPELLNKYIGASEQNVRDLFSRAQSAKP------- 87

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 442616191 322 lHIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLE 390
Cdd:cd19526   88 -CILFFDEFDSIAPKRGH--DSTGVTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLD 153
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
242-448 6.29e-38

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 150.57  E-value: 6.29e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 242 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFaeaeEEEKRLG 317
Cdd:PRK10733 174 PSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAI-----AGEAKVpfftISGSDFVEMFVGVGASRVRDMF----EQAKKAA 244

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 318 PNsglhIIIFDEIDAICKQRGsvAGNSGVHD---TVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLEVQME 394
Cdd:PRK10733 245 PC----IIFIDEIDAVGRQRG--AGLGGGHDereQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVV 318

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 442616191 395 ISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAA 448
Cdd:PRK10733 319 VGLPDVRGREQILKVHMRRV----PLAPDIDAAIIARGTPGFSGADLANLVNEA 368
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 242-390 8.59e-36

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 132.61  E-value: 8.59e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 242 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYVGESEANVRRLFAEAEeeekrlg 317
Cdd:cd19530   19 PDIYKALGIDLPTGVLLYGPPGCGKTLLAKAV-----ANESGAnfisVKGPELLNKYVGESERAVRQVFQRAR------- 86

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 442616191 318 pNSGLHIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLE 390
Cdd:cd19530   87 -ASAPCVIFFDEVDALVPKRGD--GGSWASERVVNQLLTEMDGLEERSNVFVIAATNRPDIIDPAMLRPGRLD 156
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 242-390 9.67e-36

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 132.64  E-value: 9.67e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 242 PELVeQLGCKHVKGILLYGPPGTGKTLMARQIGT--MLNAREpkiVNGPQILDKYVGESEANVRRLFAEAEEEEKrlgpn 319
Cdd:cd19527   16 PELF-SSGLRKRSGILLYGPPGTGKTLLAKAIATecSLNFLS---VKGPELINMYIGESEANVREVFQKARDAKP----- 86

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 442616191 320 sglHIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLTKIDGV-DQLNNILVIGMTNRRDMIDEALLRPGRLE 390
Cdd:cd19527   87 ---CVIFFDELDSLAPSRGNSGDSGGVMDRVVSQLLAELDGMsSSGQDVFVIGATNRPDLLDPALLRPGRFD 155
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 220-448 1.61e-34

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 137.21  E-value: 1.61e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 299
Cdd:PTZ00361 185 IGGLEQQIQEI-KEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVV-GSELIQKYLGDGP 262

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 300 ANVRRLFAEAEEEekrlGPNsglhIIIFDEIDAICKQR--GSVAGNSGVHDTVVnQLLTKIDGVDQLNNILVIGMTNRRD 377
Cdd:PTZ00361 263 KLVRELFRVAEEN----APS----IVFIDEIDAIGTKRydATSGGEKEIQRTML-ELLNQLDGFDSRGDVKVIMATNRIE 333

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 442616191 378 MIDEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAA 448
Cdd:PTZ00361 334 SLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKM----TLAEDVDLEEFIMAKDELSGADIKAICTEA 400
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 242-395 1.90e-34

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 129.27  E-value: 1.90e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 242 PELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTmlNAREPKI-VNGPQILDKYVGESEANVRRLFAEAeeeeKRLGPNs 320
Cdd:cd19501   26 PEKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAG--EAGVPFFsISGSDFVEMFVGVGASRVRDLFEQA----KKNAPC- 98

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 442616191 321 glhIIIFDEIDAICKQRGsvAGNSGVHDTV---VNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLEVQMEI 395
Cdd:cd19501   99 ---IVFIDEIDAVGRKRG--AGLGGGHDEReqtLNQLLVEMDGFESNTGVIVIAATNRPDVLDPALLRPGRFDRQVYV 171
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 220-457 9.23e-32

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 127.96  E-value: 9.23e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVnGPQILDKYVGESE 299
Cdd:PTZ00454 147 IGGLDIQKQEI-REAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVV-GSEFVQKYLGEGP 224

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 300 ANVRRLFaeaeeeekRLGPNSGLHIIIFDEIDAICKQR-GSVAGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDM 378
Cdd:PTZ00454 225 RMVRDVF--------RLARENAPSIIFIDEVDSIATKRfDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADT 296

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 379 IDEALLRPGRLEVQMEISLPNEQGRVQILNIHTKRMrefnKINDDVDNKEIAALTKNFSGAELEGLVRAAQSSAM--NRL 456
Cdd:PTZ00454 297 LDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKM----NLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVrkNRY 372


                 .
gi 442616191 457 I 457
Cdd:PTZ00454 373 V 373
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 220-390 3.74e-31

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 119.92  E-value: 3.74e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIFRRAFASRVFPpELVEQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIV----NGPQILDKYV 295
Cdd:cd19517    2 IGGLSHYINQLKEMVFFPLLYP-EVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSKGGQKVSffmrKGADCLSKWV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 296 GESEANVRRLFaeaeEEEKRLGPNsglhIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNR 375
Cdd:cd19517   81 GEAERQLRLLF----EEAYRMQPS----IIFFDEIDGLAPVRSS--KQEQIHASIVSTLLALMDGLDNRGQVVVIGATNR 150

                        170
                 ....*....|....*
gi 442616191 376 RDMIDEALLRPGRLE 390
Cdd:cd19517  151 PDALDPALRRPGRFD 165
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 220-397 2.87e-28

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 111.34  E-value: 2.87e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIfRRAFASRVFPPELVEQLGCKHVKGILLYGPPGTGKTLMARQIgtmlnAREPKI----VNGPQILDKYV 295
Cdd:cd19518    2 IGGMDSTLKEL-CELLIHPILPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAI-----AGELKVpflkISATEIVSGVS 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 296 GESEANVRRLFAEAeeeeKRLGPNsglhIIIFDEIDAICKQRGSVAGNsgVHDTVVNQLLTKIDGvdqLNN-------IL 368
Cdd:cd19518   76 GESEEKIRELFDQA----ISNAPC----IVFIDEIDAITPKRESAQRE--MERRIVSQLLTCMDE---LNNektaggpVL 142

                        170       180
                 ....*....|....*....|....*....
gi 442616191 369 VIGMTNRRDMIDEALLRPGRLEvqMEISL 397
Cdd:cd19518  143 VIGATNRPDSLDPALRRAGRFD--REICL 169
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 242-390 5.72e-27

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 107.44  E-value: 5.72e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 242 PELVeQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAEEeekrLGPNsg 321
Cdd:cd19509   22 PDLF-PGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSI-SASSLVSKWVGESEKIVRALFALARE----LQPS-- 93

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 442616191 322 lhIIIFDEIDAICKQRGSvaGNSGVHDTVVNQLLTKIDGV--DQLNNILVIGMTNRRDMIDEALLRpgRLE 390
Cdd:cd19509   94 --IIFIDEIDSLLSERGS--GEHEASRRVKTEFLVQMDGVlnKPEDRVLVLGATNRPWELDEAFLR--RFE 158
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 254-397 3.45e-21

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 90.67  E-value: 3.45e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMARQIGTMLNAREPKI--VNGPQILDKYVGESEANVRRLFAEAEEEEKRLGPnsglhIIIFDEID 331
Cdd:cd00009   20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFlyLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPG-----VLFIDEID 94

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 442616191 332 AIckqrgsvagNSGVHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLEVQMEISL 397
Cdd:cd00009   95 SL---------SRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 254-395 9.39e-19

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 84.27  E-value: 9.39e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMARQIG-----TMLNarepkiVNGPQILDKYVGESEANVRRLFaeaeEEEKRLGPNSglhiIIFD 328
Cdd:cd19522   34 KGVLMVGPPGTGKTLLAKAVAtecgtTFFN------VSSSTLTSKYRGESEKLVRLLF----EMARFYAPTT----IFID 99

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 442616191 329 EIDAICKQRGSvagnSGVHDT---VVNQLLTKIDGV-------DQLNNILVIGMTNRRDMIDEALLRpgRLEVQMEI 395
Cdd:cd19522  100 EIDSICSRRGT----SEEHEAsrrVKSELLVQMDGVggasendDPSKMVMVLAATNFPWDIDEALRR--RLEKRIYI 170
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 220-391 1.65e-18

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 83.24  E-value: 1.65e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLDKEFNSIFRRAfasrVFP---PELVEQ---LGCKhvKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGpQILDK 293
Cdd:cd19520    2 IGGLDEVITELKELV----ILPlqrPELFDNsrlLQPP--KGVLLYGPPGCGKTMLAKATAKEAGARFINLQVS-SLTDK 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 294 YVGESEANVRRLFAEAeeeeKRLGPNsglhIIIFDEIDAICKQRgsvagNSGVHD---TVVNQLLTKIDGV--DQLNNIL 368
Cdd:cd19520   75 WYGESQKLVAAVFSLA----SKLQPS----IIFIDEIDSFLRQR-----SSTDHEataMMKAEFMSLWDGLstDGNCRVI 141

                        170       180
                 ....*....|....*....|....*
gi 442616191 369 VIGMTNRRDMIDEALLR--PGRLEV 391
Cdd:cd19520  142 VMGATNRPQDLDEAILRrmPKRFHI 166
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 254-385 1.37e-17

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 81.19  E-value: 1.37e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAeeeekRLGPNSglhIIIFDEIDAI 333
Cdd:cd19525   56 KGILLFGPPGTGKTLIGKCIASQSGATFFSI-SASSLTSKWVGEGEKMVRALFSVA-----RCKQPA---VIFIDEIDSL 126

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 442616191 334 CKQRGsvagnSGVHDT---VVNQLLTKIDGVDQLNN--ILVIGMTNRRDMIDEALLR 385
Cdd:cd19525  127 LSQRG-----EGEHESsrrIKTEFLVQLDGATTSSEdrILVVGATNRPQEIDEAARR 178
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 254-395 7.72e-17

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 78.75  E-value: 7.72e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAEEEEKRlgpnsglhIIIFDEIDAI 333
Cdd:cd19521   41 SGILLYGPPGTGKSYLAKAVATEANSTFFSV-SSSDLVSKWMGESEKLVKQLFAMARENKPS--------IIFIDEVDSL 111

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 442616191 334 CKQRGSvaGNSGVHDTVVNQLLTKIDGVDQLNN-ILVIGMTNRRDMIDEALLRpgRLEVQMEI 395
Cdd:cd19521  112 CGTRGE--GESEASRRIKTELLVQMNGVGNDSQgVLVLGATNIPWQLDSAIRR--RFEKRIYI 170
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 254-385 1.26e-15

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 74.89  E-value: 1.26e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAEEeekrLGPNsglhIIIFDEIDAI 333
Cdd:cd19524   34 RGLLLFGPPGNGKTMLAKAVAAESNATFFNI-SAASLTSKYVGEGEKLVRALFAVARE----LQPS----IIFIDEVDSL 104

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 442616191 334 CKQRGSvaGNSGVHDTVVNQLLTKIDGV--DQLNNILVIGMTNRRDMIDEALLR 385
Cdd:cd19524  105 LSERSE--GEHEASRRLKTEFLIEFDGVqsNGDDRVLVMGATNRPQELDDAVLR 156
ycf46 CHL00195
Ycf46; Provisional
 173-442 5.13e-15

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 78.52  E-value: 5.13e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 173 RFGRILGNTVVQFEKAENSSLNLQGKSKGKVVRQSIINPDWDFGKM--GIGGLDKEFNSIFRRafaSRVFPpELVEQLGC 250
Cdd:CHL00195 181 RIRRVLSKIIATYKTIDENSIPLILEEKKQIISQTEILEFYSVNEKisDIGGLDNLKDWLKKR---STSFS-KQASNYGL 256

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 251 KHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGpQILDKYVGESEANVRRLFAEAEEeekrLGPNsglhIIIFDEI 330
Cdd:CHL00195 257 PTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVG-KLFGGIVGESESRMRQMIRIAEA----LSPC----ILWIDEI 327

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 331 DAiCKQRGSVAGNSGVHDTVVNQLLTKIDgvDQLNNILVIGMTNRRDMIDEALLRPGRLEVQMEISLPNEQGRVQILNIH 410
Cdd:CHL00195 328 DK-AFSNSESKGDSGTTNRVLATFITWLS--EKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIH 404

                        250       260       270
                 ....*....|....*....|....*....|..
gi 442616191 411 TKRMREfNKINdDVDNKEIAALTKNFSGAELE 442
Cdd:CHL00195 405 LQKFRP-KSWK-KYDIKKLSKLSNKFSGAEIE 434
CDC48_N smart01073
Cell division protein 48 (CDC48) N-terminal domain; This domain has a double psi-beta barrel ...
 5-83 1.38e-14

Cell division protein 48 (CDC48) N-terminal domain; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases is a substrate 185-residue recognition domain.


Pssm-ID: 215012 [Multi-domain]  Cd Length: 82  Bit Score: 69.18  E-value: 1.38e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191     5 LKATKCPTDELSLTNRAIVNVGDFPE-EIKYADISPAPGQHFIFALEK--TVEVPSGYVGFSLVQRKWAMVSINQELEVR 81
Cdd:smart01073   1 LRVAEAPSDEDVGRGIARLSPEDMDElGLFPGDYVLITGKRRTVAIVWpaYPEDPGGIIRIDGVQRKNAGVSIGDTVTVR 80


                   ..
gi 442616191    82 PY 83
Cdd:smart01073  81 KA 82
CDC48_N pfam02359
Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel ...
 4-85 1.35e-13

Cell division protein 48 (CDC48), N-terminal domain; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the N-terminus. The VAT-N domain found in AAA ATPases pfam00004 is a substrate 185-residue recognition domain.


Pssm-ID: 426738  Cd Length: 85  Bit Score: 66.45  E-value: 1.35e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191    4 ILKATKCPtDELSLTNRAIVNVGDFPE-EIKYADISPAPGQH----FIFALEKTVEVPsGYVGFSLVQRKWAMVSINQEL 78
Cdd:pfam02359   1 RLRVAEAP-DRDVGRGIARLNPEDMEElGLFPGDVVEIKGKRktvaIVWSAYPEDEGP-GIIRMDGVTRKNAGVSIGDTV 78


                  ....*..
gi 442616191   79 EVRPYRF 85
Cdd:pfam02359  79 TVRPAEV 85
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 220-388 2.12e-12

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 65.47  E-value: 2.12e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 220 IGGLD--KEFNSIFRRAFASRVFppelveQLGCKHVKGILLYGPPGTGKTLMARQIGTMLNAREPKIVNGpQILDKYVGE 297
Cdd:cd19507    2 VGGLDnlKDWLKKRKAAFSKQAS------AYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMG-RLFGGLVGE 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 298 SEANVRRLFAEAEEeekrLGPNsglhIIIFDEIDAiCKQRGSVAGNSGVHDTVVNQLLTKIDgvDQLNNILVIGMTNRRD 377
Cdd:cd19507   75 SESRLRQMIQTAEA----IAPC----VLWIDEIEK-GFSNADSKGDSGTSSRVLGTFLTWLQ--EKKKPVFVVATANNVQ 143

                        170
                 ....*....|.
gi 442616191 378 MIDEALLRPGR 388
Cdd:cd19507  144 SLPPELLRKGR 154
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 539-668 2.24e-12

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 64.54  E-value: 2.24e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDMVGYT-ESAKclHIRKIFDDAYRSMLSCIVVDNVERLL-DYGSIGP 616
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVgESEK--RLRELFEAAKKLAPCVIFIDEIDALAgSRGSGGD 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 442616191  617 RYSNMTLQALLVLLKKQPPKGRKLLILCTSSRREVLEEmEMLTAFTSVLHVP 668
Cdd:pfam00004  79 SESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDP-ALLGRFDRIIEFP 129
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 254-399 2.27e-12

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 65.09  E-value: 2.27e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191   254 KGILLYGPPGTGKTLMARQIGTMLNAREPKIV----------------NGPQILDKYVGESEANVRRLFAEAEEEEKRlg 317
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARELGPPGGGVIyidgedileevldqllLIIVGGKKASGSGELRLRLALALARKLKPD-- 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191   318 pnsglhIIIFDEIDAICKQRGSVAGNSGVHDTVVNQLLtkidgvdQLNNILVIGMTNRRDMIDEALLRPgRLEVQMEISL 397
Cdd:smart00382  81 ------VLILDEITSLLDAEQEALLLLLEELRLLLLLK-------SEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLL 146


                   ..
gi 442616191   398 PN 399
Cdd:smart00382 147 IL 148
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 256-383 3.48e-11

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 63.23  E-value: 3.48e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 256 ILLYGPPGTGKT----LMARQIGTMLNAREPKI----VNGPQILDKYVGESEANVRRLFAEAEE--EEKrlgpnSGLHII 325
Cdd:cd19508   55 VLLHGPPGTGKTslckALAQKLSIRLSSRYRYGqlieINSHSLFSKWFSESGKLVTKMFQKIQEliDDK-----DALVFV 129

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 326 IFDEIDAICKQRGSVAGNSGVHDT--VVNQLLTKIDGVDQLNNILVIGMTNRRDMIDEAL 383
Cdd:cd19508  130 LIDEVESLAAARSASSSGTEPSDAirVVNAVLTQIDRIKRYHNNVILLTSNLLEKIDVAF 189
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 254-385 4.31e-10

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 59.13  E-value: 4.31e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMARQIGTMLNAREPKIvNGPQILDKYVGESEANVRRLFAEAeeeekRLGPNSglhIIIFDEIDAI 333
Cdd:cd19523   34 RSILLFGPRGTGKTLLGRCLASQLGATFLRL-RGSTLVAKWAGEGEKILQASFLAA-----RCRQPS---VLFISDLDAL 104

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 442616191 334 CKQRgsVAGNSGVhDTVVNQLLTKIDGV--DQLNNILVIGMTNRRDMIDEALLR 385
Cdd:cd19523  105 LSSQ--DDEASPV-GRLQVELLAQLDGVlgSGEDGVLVVCTTSKPEEIDESLRR 155
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 518-654 4.94e-10

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 58.83  E-value: 4.94e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 518 LEDGMLYVQQAKAPESSGLV---SVLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDM---VGYTESAkclhIRKIFDD 591
Cdd:cd19481    5 LREAVEAPRRGSRLRRYGLGlpkGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLskyVGESEKN----LRKIFER 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 442616191 592 AyRSMLSCIVV-DNVERLL---DYGSiGPRYSNMTLQALLVLLKKQPPKGrKLLILCTSSRREVLEE 654
Cdd:cd19481   81 A-RRLAPCILFiDEIDAIGrkrDSSG-ESGELRRVLNQLLTELDGVNSRS-KVLVIAATNRPDLLDP 144
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 254-395 3.31e-09

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 56.21  E-value: 3.31e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMarqIGTMLNAREPKIVngpqILD-KYVGESEANVRRLFAEAeeeekrlGPNSglhIIIFDEIDA 332
Cdd:cd19510   24 RGYLLYGPPGTGKSSF---IAALAGELDYDIC----DLNlSEVVLTDDRLNHLLNTA-------PKQS---IILLEDIDA 86

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 442616191 333 ICKQR---GSVAGNSGVHDTV-VNQLLTKIDGVDQLNNILVIGMTNRRDMIDEALLRPGRLEVQMEI 395
Cdd:cd19510   87 AFESRehnKKNPSAYGGLSRVtFSGLLNALDGVASSEERIVFMTTNHIERLDPALIRPGRVDMKIYM 153
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 526-702 5.85e-07

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 52.61  E-value: 5.85e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 526 QQAKAPESSGLV---SVLVAGAPNSGKTALAAQLAKMSDFPFVKVcSPEDMVG-YT-ESAKclHIRKIFDDAyRSMLSCI 600
Cdd:COG0464  178 KRPELREEYGLPpprGLLLYGPPGTGKTLLARALAGELGLPLIEV-DLSDLVSkYVgETEK--NLREVFDKA-RGLAPCV 253

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 601 V-VDNVERLL-DYGSIGPRYSNMTLQALLVLLKKQPPKGrklLILCTSSRREVLEEmEMLTAFTSVLHVPnlsKPDhvla 678
Cdd:COG0464  254 LfIDEADALAgKRGEVGDGVGRRVVNTLLTEMEELRSDV---VVIAATNRPDLLDP-ALLRRFDEIIFFP---LPD---- 322

                        170       180
                 ....*....|....*....|....
gi 442616191 679 vlentdifsKGEIQAIGKKMAGKR 702
Cdd:COG0464  323 ---------AEERLEIFRIHLRKR 337
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 538-668 7.10e-07

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 49.45  E-value: 7.10e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 538 SVLVAGAPNSGKTALAAQLAK---MSDFPFVKVCSPEDMVGYTESAKCLHI--RKIFDDAYRSMLSCIVVDNVERLldyg 612
Cdd:cd00009   21 NLLLYGPPGTGKTTLARAIANelfRPGAPFLYLNASDLLEGLVVAELFGHFlvRLLFELAEKAKPGVLFIDEIDSL---- 96

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 442616191 613 siGPRYSNMTLQALLVLLKKQPPKGRKLLILCTSSRREVLEEMEMLTAFTSVLHVP 668
Cdd:cd00009   97 --SRGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP 150
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 423-459 1.18e-06

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 45.61  E-value: 1.18e-06
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 442616191  423 DVDNKEIAALTKNFSGAELEGLVRAAQSSAMNRLIKA 459
Cdd:pfam17862   1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLEA 37
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 255-385 8.85e-06

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 45.75  E-value: 8.85e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  255 GILLYGPPGTGKTLMARQIGTMLNAREPKIVNGPqildKYVGESEANVRRLFAEaEEEEKRLGP-----NSGlHIIIFDE 329
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAAALSNRPVFYVQLT----RDTTEEDLFGRRNIDP-GGASWVDGPlvraaREG-EIAVLDE 74

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 442616191  330 IDAIckqrgsvagnsgvHDTVVNQLLTKID----------GVDQ--LNNILVIGMTNRRDM----IDEALLR 385
Cdd:pfam07728  75 INRA-------------NPDVLNSLLSLLDerrlllpdggELVKaaPDGFRLIATMNPLDRglneLSPALRS 133
CDC48_2 smart01072
Cell division protein 48 (CDC48) domain 2; This domain has a double psi-beta barrel fold and ...
 111-158 1.22e-05

Cell division protein 48 (CDC48) domain 2; This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C-terminus. The VAT-N domain found in AAA ATPases is a substrate 185-residue recognition domain.


Pssm-ID: 215011  Cd Length: 64  Bit Score: 43.36  E-value: 1.22e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 442616191   111 PYDSDqMAKEFIMQFAGMALTVGQSLVFNFKDkKLLGLAVKSLEAIDP 158
Cdd:smart01072   1 PFDGD-FAEYVKRKLLGRPVTKGDTIVVPFLG-KALPFVVVSTEPSGP 46
RecA-like_ClpX cd19497
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ...
 256-358 2.28e-05

ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent protease ClpXP. In ClpXP, ClpX ATPase serves to specifically recognize, unfold, and translocate protein substrates into the chamber of ClpP protease for degradation. This RecA-like_ClpX domain subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410905 [Multi-domain]  Cd Length: 251  Bit Score: 46.44  E-value: 2.28e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 256 ILLYGPPGTGKTLMARQIGTMLNArePKIVNGPQILDK--YVGESEANV-RRLFAEAEEEEKRlgPNSGlhIIIFDEIDA 332
Cdd:cd19497   53 ILLIGPTGSGKTLLAQTLAKILDV--PFAIADATTLTEagYVGEDVENIlLKLLQAADYDVER--AQRG--IVYIDEIDK 126

                         90       100
                 ....*....|....*....|....*.
gi 442616191 333 ICKQRGSVAGNSGVHDTVVNQLLTKI 358
Cdd:cd19497  127 IARKSENPSITRDVSGEGVQQALLKI 152
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 539-653 4.54e-05

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 44.70  E-value: 4.54e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDMVGYT-ESAKclHIRKIFDDAYRSMLSCIVVDNVErlldygSIGPR 617
Cdd:cd19518   37 VLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSgESEE--KIRELFDQAISNAPCIVFIDEID------AITPK 108

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 442616191 618 YSN--------MTLQALLVL--LKKQPPKGRKLLILCTSSRREVLE 653
Cdd:cd19518  109 RESaqremerrIVSQLLTCMdeLNNEKTAGGPVLVIGATNRPDSLD 154
AAA_22 pfam13401
AAA domain;
256-379 6.82e-05

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 43.10  E-value: 6.82e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  256 ILLYGPPGTGKTLMARQIGTMLNAREPKIV-------NGPQILDKYV-------GESEANVRRLFAEAEEEEKRLGpnsG 321
Cdd:pfam13401   8 LVLTGESGTGKTTLLRRLLEQLPEVRDSVVfvdlpsgTSPKDLLRALlralglpLSGRLSKEELLAALQQLLLALA---V 84

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 442616191  322 LHIIIFDEIDAIckqrgsvagnsgvHDTVVNQLLTKIDGVDQLNNILVIGMTNRRDMI 379
Cdd:pfam13401  85 AVVLIIDEAQHL-------------SLEALEELRDLLNLSSKLLQLILVGTPELRELL 129
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 256-378 9.71e-05

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 45.61  E-value: 9.71e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  256 ILLYGPPGTGKTLMARQIGTMLNA----REPKI--VNGPQILDKYVGESEANVRRLFaeaeeeEKRLGpnsglHIIIFDE 329
Cdd:TIGR03922 315 MLFAGPPGTGKTTIARVVAKIYCGlgvlRKPLVreVSRADLIGQYIGESEAKTNEII------DSALG-----GVLFLDE 383

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 442616191  330 IDAICKQRGSVAGNSGVhdTVVNQLLTKIDgvDQLNNILVIGMTNRRDM 378
Cdd:TIGR03922 384 AYTLVETGYGQKDPFGL--EAIDTLLARME--NDRDRLVVIGAGYRKDL 428
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 539-608 4.63e-04

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 41.51  E-value: 4.63e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 442616191 539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDMVGYT-ESAKCLhiRKIFDDAYRSMLSCIVVDNVERL 608
Cdd:cd19503   37 VLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLgESEKNL--REIFEEARSHAPSIIFIDEIDAL 105
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 254-383 7.75e-04

ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase domains; ATPase AAA-domain protein 3 (ATAD3) is a ubiquitously expressed mitochondrial protein involved in mitochondrial dynamics, DNA-nucleoid structural organization, cholesterol transport and steroidogenesis. The ATAD3 gene family in human comprises three paralog genes: ATAD3A, ATAD3B and ATAD3C. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410920 [Multi-domain]  Cd Length: 150  Bit Score: 40.59  E-value: 7.75e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMARQIGtMLNAREPKIVNGPQILDkyVG-ESEANVRRLFAEAEEEEKRLgpnsglhIIIFDEIDA 332
Cdd:cd19512   23 RNILFYGPPGTGKTLFAKKLA-LHSGMDYAIMTGGDVAP--MGrEGVTAIHKVFDWANTSRRGL-------LLFVDEADA 92

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 442616191 333 ICKQRGSvAGNSGVHDTVVNQLLTKIDgvDQLNNILVIGMTNRRDMIDEAL 383
Cdd:cd19512   93 FLRKRST-EKISEDLRAALNAFLYRTG--EQSNKFMLVLASNQPEQFDWAI 140
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 228-330 8.09e-04

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 42.74  E-value: 8.09e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 228 NSIFRRAFASRVFPPelveqlgckhvkgILLYGPPGTGKT----LMARQIGT---MLNArepkivngpqildkyVGESEA 300
Cdd:COG2256   37 GKPLRRAIEAGRLSS-------------MILWGPPGTGKTtlarLIANATDAefvALSA---------------VTSGVK 88

                         90       100       110
                 ....*....|....*....|....*....|.
gi 442616191 301 NVRRLFAEAEEEEKrlgpnSGLHIIIF-DEI 330
Cdd:COG2256   89 DIREVIEEARERRA-----YGRRTILFvDEI 114
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 228-330 8.19e-04

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 42.38  E-value: 8.19e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 228 NSIFRRAFASRVFPPelveqlgckhvkgILLYGPPGTGKT----LMARQIGT---MLNArepkivngpqildkyVGESEA 300
Cdd:PRK13342  24 GKPLRRMIEAGRLSS-------------MILWGPPGTGKTtlarIIAGATDApfeALSA---------------VTSGVK 75

                         90       100       110
                 ....*....|....*....|....*....|.
gi 442616191 301 NVRRLFAEAEEEEkrlgpNSGLHIIIF-DEI 330
Cdd:PRK13342  76 DLREVIEEARQRR-----SAGRRTILFiDEI 101
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 256-335 9.88e-04

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 40.64  E-value: 9.88e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  256 ILLYGPPGTGKTLMARQIGTMLNAREPKIVNG-------PQILDKYVGESEANVRrlfaeAEE-----EEKRLGPNSglh 323
Cdd:pfam07724   6 FLFLGPTGVGKTELAKALAELLFGDERALIRIdmseymeEHSVSRLIGAPPGYVG-----YEEggqltEAVRRKPYS--- 77

                          90
                  ....*....|..
gi 442616191  324 IIIFDEIDAICK 335
Cdd:pfam07724  78 IVLIDEIEKAHP 89
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
256-290 1.58e-03

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 41.27  E-value: 1.58e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 442616191 256 ILLYGPPGTGKTLMARQIGTMLNARePKIVNGPQI 290
Cdd:PRK00080  54 VLLYGPPGLGKTTLANIIANEMGVN-IRITSGPAL 87
BREX_3_BrxF NF033453
BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino ...
 539-610 3.07e-03

BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino acids in length includes BrxF from type 3 BREX (bacteriophage exclusion) systems. Most members have the P-loop motif GxxGxGKT, but the region is surprisingly poorly conserved in a sizable fraction of otherwise strongly similar proteins.


Pssm-ID: 468038  Cd Length: 149  Bit Score: 38.63  E-value: 3.07e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 442616191 539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCS--PEDMVGYTESAKCLHIRKIFDD-AYRSMLSCIVVDNVERLLD 610
Cdd:NF033453  19 ILLVGPPGSGKTALLRELAAKRGAPVINVNLelSRRLLELPEKQRALRAPRLLDEiAEKSSGDVVLLDNIEILFD 93
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 539-617 3.14e-03

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 39.02  E-value: 3.14e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDM---VGYTESAkclhIRKIFDDAYRSMLSCIVVDNVErlldygSIG 615
Cdd:cd19529   30 ILLYGPPGTGKTLLAKAVATESNANFISVKGPELLskwVGESEKA----IREIFRKARQVAPCVIFFDEID------SIA 99


                 ..
gi 442616191 616 PR 617
Cdd:cd19529  100 PR 101
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 539-622 3.39e-03

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 38.96  E-value: 3.39e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDM---VGYTESakclHIRKIFDDAYRSMLSCIVVDNVErlldygSIG 615
Cdd:cd19519   37 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMsklAGESES----NLRKAFEEAEKNAPAIIFIDEID------AIA 106


                 ....*..
gi 442616191 616 PRYSNMT 622
Cdd:cd19519  107 PKREKTH 113
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 539-617 3.93e-03

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 38.80  E-value: 3.93e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDM---VGYTESAkclhIRKIFDDAYRSMLSCIVVDNVErlldygSIG 615
Cdd:cd19511   30 VLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFskyVGESERA----VREIFQKARQAAPCIIFFDEID------SLA 99


                 ..
gi 442616191 616 PR 617
Cdd:cd19511  100 PR 101
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 539-646 4.03e-03

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 40.66  E-value: 4.03e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  539 VLVAGAPNSGKTALAAQLAKMSDFPFVKVCSPEDMVGYT-ESAKCLhiRKIFDDAYRSMLSCIVVDNVErlldygSIGPR 617
Cdd:TIGR01243 215 VLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYgESEERL--REIFKEAEENAPSIIFIDEID------AIAPK 286

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 442616191  618 YSNMT-------LQALLVLLKKQPPKGRKLLILCTS 646
Cdd:TIGR01243 287 REEVTgevekrvVAQLLTLMDGLKGRGRVIVIGATN 322
GPN2 cd17871
GPN-loop GTPase 2; GPN-loop GTPase 2 (GPN2) is a small GTPase required for proper localization ...
 255-322 4.38e-03

GPN-loop GTPase 2; GPN-loop GTPase 2 (GPN2) is a small GTPase required for proper localization of RNA polymerase II and III (RNAPII and RNAPIII). It forms heterodimers with GPN1 or GPN3.


Pssm-ID: 349780  Cd Length: 196  Bit Score: 39.06  E-value: 4.38e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 442616191 255 GILLYGPPGTGKTLMARQIGTMLNA--REPKIVNgpqiLD------KYvgESEANVRRLFaEAEE--EEKRLGPNSGL 322
Cdd:cd17871    2 GQVVIGPPGSGKTTYCKGMQQFLSAlgRKVAVVN----LDpaneflPY--PCDVDIRELI-TVEDvmEELKLGPNGGL 72
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 514-609 5.57e-03

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 38.17  E-value: 5.57e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 514 VSNLLEDGMLYVQQAKAPESSGLVS----VLVAGAPNSGKTALAAQLAKMSDFPFVKVcSPEDMVG--YTESAKClhIRK 587
Cdd:cd19520    9 ITELKELVILPLQRPELFDNSRLLQppkgVLLYGPPGCGKTMLAKATAKEAGARFINL-QVSSLTDkwYGESQKL--VAA 85

                         90       100
                 ....*....|....*....|..
gi 442616191 588 IFDDAYRSMLSCIVVDNVERLL 609
Cdd:cd19520   86 VFSLASKLQPSIIFIDEIDSFL 107
PRK04195 PRK04195
replication factor C large subunit; Provisional
 254-333 6.33e-03

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 39.90  E-value: 6.33e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 254 KGILLYGPPGTGKTLMARQIG-TM------LNAREpkiVNGPQILDKYVGESeANVRRLFaeaeeeekrlgpNSGLHIII 326
Cdd:PRK04195  40 KALLLYGPPGVGKTSLAHALAnDYgwevieLNASD---QRTADVIERVAGEA-ATSGSLF------------GARRKLIL 103


                 ....*..
gi 442616191 327 FDEIDAI 333
Cdd:PRK04195 104 LDEVDGI 110
RNA_helicase pfam00910
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
 256-297 7.25e-03

RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.


Pssm-ID: 459992  Cd Length: 102  Bit Score: 36.81  E-value: 7.25e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 442616191  256 ILLYGPPGTGKTLMARQIGTMLNAREPKIVN-------GPQILDKYVGE 297
Cdd:pfam00910   1 IWLYGPPGCGKSTLAKYLARALLKKLGLPKDsvysrnpDDDFWDGYTGQ 49
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
518-601 7.41e-03

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 38.71  E-value: 7.41e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191 518 LEDGMLYVQQAKAPESSGLV---SVLVAGAPNSGKTALAAQLAKMSDFPFVKVcSPEDMVG-YT-ESAKclHIRKIFDDA 592
Cdd:COG1223   14 LKLIIKELRRRENLRKFGLWpprKILFYGPPGTGKTMLAEALAGELKLPLLTV-RLDSLIGsYLgETAR--NLRKLFDFA 90


                 ....*....
gi 442616191 593 YRsmLSCIV 601
Cdd:COG1223   91 RR--APCVI 97
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 256-277 8.20e-03

Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.


Pssm-ID: 426032 [Multi-domain]  Cd Length: 207  Bit Score: 38.29  E-value: 8.20e-03
                          10        20
                  ....*....|....*....|..
gi 442616191  256 ILLYGPPGTGKTLMARQIGTML 277
Cdd:pfam01078  25 LLMIGPPGSGKTMLAKRLPGIL 46
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
 519-571 8.68e-03

TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.


Pssm-ID: 399217 [Multi-domain]  Cd Length: 347  Bit Score: 39.21  E-value: 8.68e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 442616191  519 EDGMlyVQQAKAPESSGLV------------SVLVAGAPNSGKTALAAQLAKM--SDFPFVKVCSPE 571
Cdd:pfam06068  23 SGGL--VGQEKAREAAGVIvemikegkiagrAVLIAGPPGTGKTALAIAISKElgEDTPFTSISGSE 87
YifB COG0606
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ...
 256-277 9.67e-03

Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440371 [Multi-domain]  Cd Length: 502  Bit Score: 39.25  E-value: 9.67e-03
                         10        20
                 ....*....|....*....|..
gi 442616191 256 ILLYGPPGTGKTLMARQIGTML 277
Cdd:COG0606  214 LLMIGPPGSGKTMLARRLPGIL 235
AAA_24 pfam13479
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.
 256-381 9.72e-03

AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.


Pssm-ID: 433243  Cd Length: 199  Bit Score: 38.08  E-value: 9.72e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 442616191  256 ILLYGPPGTGKTLMARQIGT--MLNaREP--KIVNGPQILDKYVGESEANVRRLFAEAEEEEKrlgpnSGLHIIIFDEID 331
Cdd:pfam13479   5 ILIYGPSGIGKTTFAKTLPKplFLD-TEKgsKALDGDRFPDIVIRDSWQDFLDAIDELTAAEL-----ADYKTIVIDTVD 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 442616191  332 A--------ICKQRGSVAGNSGVHD--------TVVNQLLTKIDGVDqlNNILVIGMTNRRDMIDE 381
Cdd:pfam13479  79 WlerlclayICKQNGKGSSIEDGGYgkgygelgEEFRRLLDALQELG--KNVIFTAHAKTRKDEDP 142
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH