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Conserved domains on  [gi|334183580|ref|NP_176404|]
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AAA-type ATPase family protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 754-908 3.73e-72

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd19520:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 166  Bit Score: 236.17  E-value: 3.73e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFCKGQLTKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMSMS----RWFSEGE 829
Cdd:cd19520     1 DIGGLDEVITELKELVILPLQRPELFDNSRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSsltdKWYGESQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESML-------HRYRLKTKNEFIINWDGLRTNEKERVLVLAATNRPFDLDEAVIRRL 902
Cdd:cd19520    81 KLVAAVFSLASKLQPSIIFIDEIDSFLrqrsstdHEATAMMKAEFMSLWDGLSTDGNCRVIVMGATNRPQDLDEAILRRM 160


                  ....*.
gi 334183580  903 PHRLMV 908
Cdd:cd19520   161 PKRFHI 166
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 705-1016 3.90e-65

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


:

Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 222.96  E-value: 3.90e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  705 RVILSLESLKCGIELLEIESKKSLKDIVTENTFEISDIIPpseiGVTFDDIGALENVKDTLKELVMLPFQWPELFCKGQL 784
Cdd:COG1222    34 QPVKALELLEEAPALLLNDANLTQKRLGTPRGTAVPAESP----DVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGI 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  785 tKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVKAVFSLASKISPSIIFLDEVESMLHRyR 860
Cdd:COG1222   110 -EPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRgselVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAAR-R 187

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  861 L---------KTKNEFIINWDGLrtNEKERVLVLAATNRPFDLDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDL 929
Cdd:COG1222   188 TddgtsgevqRTVNQLLAELDGF--ESRGDVLIIAATNRPDLLDPALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPL 265

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  930 SPDFDIDEVASMTNGYSGNDLKNLCVTAARRriieivekekserdaAVAEGRvppagsggsdlRVLKMEDFRNALELVSM 1009
Cdd:COG1222   266 ADDVDLDKLAKLTEGFSGADLKAIVTEAGMF---------------AIREGR-----------DTVTMEDLEKAIEKVKK 319


                  ....*..
gi 334183580 1010 SISSKSV 1016
Cdd:COG1222   320 KTETATN 326
FHA super family cl00062
forkhead associated (FHA) domain superfamily; Forkhead-associated (FHA) domains are small ...
 93-193 2.51e-05

forkhead associated (FHA) domain superfamily; Forkhead-associated (FHA) domains are small phosphopeptide recognition modules mostly found in eubacteria and eukaryotes. It is about 95-120 residues long that fold into an 11-stranded beta-sandwich. FHA domains can mediate the recognition of phosphorylated and non-phosphorylated substrates, as well as protein oligomerization. They specifically recognize threonine phosphorylation (pThr) accompanying activation of protein serine/threonine kinases. FHA domains show diverse ligand specificity. They may recognize the pTXXD motif, the pTXXI/L motif, and TQ clusters (singly and multiply phosphorylated). In eukaryotes, FHA superfamily members include forkhead-type transcription factors, as well as other signaling proteins, such as many regulatory proteins, kinases, phosphatases, motor proteins called kinesins, and metabolic enzymes. Many of them localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. FHA domains play important roles in human diseases, particularly in relation to DNA damage responses and cancers. In bacteria, FHA domain-containing proteins may participate in injection of viral proteins into host cells, transmembrane transporters, and cell division. FHA domain-containing proteins rarely include more than one copy of the domain. The only exception in eukaryotes is the checkpoint kinase Rad53 from Saccharomyces cerevisiae, which harbors two FHA domains (FHA1 and FHA2) flanking a central kinase domain. The two FHA domains recognize different phosphorylated targets and function independently from one another. In contrast, Mycobacterium tuberculosis ABC transporter Rv1747 contains two FHA domains but only one of them is essential for protein function.


The actual alignment was detected with superfamily member cd22690:

Pssm-ID: 469597 [Multi-domain]  Cd Length: 105  Bit Score: 44.21  E-value: 2.51e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   93 WCKLLSQSAKQQNLCLYESSCTFGSCLTSDFTLHDRNLGAFLCKITRI--QRNGNVVAVLDiTGTGGPLrINKAFVIKNV 170
Cdd:cd22690     1 WGRLKSLNPSYPDIELTQNTTFIGRSKDCDEEITDPRISKHHCIITRKrsGKGLDDVYVTD-TSTNGTF-INNNRLGKGS 78

                          90       100
                  ....*....|....*....|....*..
gi 334183580  171 SHELHSGDELVF----GLNRSYAFIYQ 193
Cdd:cd22690    79 QSLLQDGDEIVLiwdkNNKEKIGFIFQ 105
 
Name Accession Description Interval E-value
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 754-908 3.73e-72

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: 236.17  E-value: 3.73e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFCKGQLTKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMSMS----RWFSEGE 829
Cdd:cd19520     1 DIGGLDEVITELKELVILPLQRPELFDNSRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSsltdKWYGESQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESML-------HRYRLKTKNEFIINWDGLRTNEKERVLVLAATNRPFDLDEAVIRRL 902
Cdd:cd19520    81 KLVAAVFSLASKLQPSIIFIDEIDSFLrqrsstdHEATAMMKAEFMSLWDGLSTDGNCRVIVMGATNRPQDLDEAILRRM 160


                  ....*.
gi 334183580  903 PHRLMV 908
Cdd:cd19520   161 PKRFHI 166
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 705-1016 3.90e-65

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 222.96  E-value: 3.90e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  705 RVILSLESLKCGIELLEIESKKSLKDIVTENTFEISDIIPpseiGVTFDDIGALENVKDTLKELVMLPFQWPELFCKGQL 784
Cdd:COG1222    34 QPVKALELLEEAPALLLNDANLTQKRLGTPRGTAVPAESP----DVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGI 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  785 tKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVKAVFSLASKISPSIIFLDEVESMLHRyR 860
Cdd:COG1222   110 -EPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRgselVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAAR-R 187

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  861 L---------KTKNEFIINWDGLrtNEKERVLVLAATNRPFDLDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDL 929
Cdd:COG1222   188 TddgtsgevqRTVNQLLAELDGF--ESRGDVLIIAATNRPDLLDPALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPL 265

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  930 SPDFDIDEVASMTNGYSGNDLKNLCVTAARRriieivekekserdaAVAEGRvppagsggsdlRVLKMEDFRNALELVSM 1009
Cdd:COG1222   266 ADDVDLDKLAKLTEGFSGADLKAIVTEAGMF---------------AIREGR-----------DTVTMEDLEKAIEKVKK 319


                  ....*..
gi 334183580 1010 SISSKSV 1016
Cdd:COG1222   320 KTETATN 326
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 752-1011 2.40e-57

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: 203.60  E-value: 2.40e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  752 FDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSE 827
Cdd:COG0464   156 LDDLGGLEEVKEELRELVALPLKRPELREEYGLPPP-RGLLLYGPPGTGKTLLARALAGELGLPLIEVDlsdlVSKYVGE 234

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  828 GEKYVKAVFSLASKISPSIIFLDEVESmLHRYRLKTKNEF---IIN----W-DGLRtnekERVLVLAATNRPFDLDEAVI 899
Cdd:COG0464   235 TEKNLREVFDKARGLAPCVLFIDEADA-LAGKRGEVGDGVgrrVVNtlltEmEELR----SDVVVIAATNRPDLLDPALL 309

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  900 RRLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDLKNLCVTAARRriieivekekserdaAVAE 979
Cdd:COG0464   310 RRFDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQ---------------ALRL 374

                         250       260       270
                  ....*....|....*....|....*....|..
gi 334183580  980 GRVPpagsggsdlrvLKMEDFRNALELVSMSI 1011
Cdd:COG0464   375 GREP-----------VTTEDLLEALEREDIFL 395
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 725-1029 2.44e-49

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: 187.81  E-value: 2.44e-49
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   725 KKSLKDIVTENTFEISDIIPpseiGVTFDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTML 804
Cdd:TIGR01243  429 MEALKMVEPSAIREVLVEVP----NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPP-KGVLLFGPPGTGKTLL 503

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   805 AKAVATEAGANLINMS----MSRWFSEGEKYVKAVFSLASKISPSIIFLDEVESMLHR--YRLKTK------NEFIINWD 872
Cdd:TIGR01243  504 AKAVATESGANFIAVRgpeiLSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPArgARFDTSvtdrivNQLLTEMD 583

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   873 GLRtnEKERVLVLAATNRPFDLDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDL 950
Cdd:TIGR01243  584 GIQ--ELSNVVVIAATNRPDILDPALLRpgRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADI 661

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   951 KNLC---VTAARRRIIEIVEKEKSERDAAVAEGRVppagsggsdlrVLKMEDFRNALELVSMSISSKsvNMTALRQWNED 1027
Cdd:TIGR01243  662 EAVCreaAMAALRESIGSPAKEKLEVGEEEFLKDL-----------KVEMRHFLEALKKVKPSVSKE--DMLRYERLAKE 728


                   ..
gi 334183580  1028 YG 1029
Cdd:TIGR01243  729 LK 730
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 736-1007 8.08e-45

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 166.93  E-value: 8.08e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  736 TFEISDIIPPS--------EI----GVTFDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTM 803
Cdd:PRK03992  102 SLAIVEVLPSEkdprvqamEViespNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPP-KGVLLYGPPGTGKTL 180

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  804 LAKAVATEAGANLINMSMS----RWFSEGEKYVKAVFSLASKISPSIIFLDE---VESMlhRYRLKTKNEFIINwdglRT 876
Cdd:PRK03992  181 LAKAVAHETNATFIRVVGSelvqKFIGEGARLVRELFELAREKAPSIIFIDEidaIAAK--RTDSGTSGDREVQ----RT 254

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  877 -----------NEKERVLVLAATNRPFDLDEAVIRrlPHR----LMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASM 941
Cdd:PRK03992  255 lmqllaemdgfDPRGNVKIIAATNRIDILDPAILR--PGRfdriIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAEL 332

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334183580  942 TNGYSGNDLKNLCVTA---ARRRiieivekeksERDaavaegrvppagsggsdlrVLKMEDFRNALELV 1007
Cdd:PRK03992  333 TEGASGADLKAICTEAgmfAIRD----------DRT-------------------EVTMEDFLKAIEKV 372
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 791-910 2.26e-36

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: 133.87  E-value: 2.26e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   791 ILLFGPSGTGKTMLAKAVATEAGANLINMSMSR----WFSEGEKYVKAVFSLASKISPSIIFLDEVESML-------HRY 859
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSElvskYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAgsrgsggDSE 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 334183580   860 RLKTKNEFIINWDGLrTNEKERVLVLAATNRPFDLDEAVIRRLPHRLMVGL 910
Cdd:pfam00004   81 SRRVVNQLLTELDGF-TSSNSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 789-912 1.01e-17

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: 80.88  E-value: 1.01e-17
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580    789 NGILLFGPSGTGKTMLAKAVATEAGAN-----LINMSMSR----------------WFSEGEKYVKAVFSLASKISPSII 847
Cdd:smart00382    3 EVILIVGPPGSGKTTLARALARELGPPgggviYIDGEDILeevldqllliivggkkASGSGELRLRLALALARKLKPDVL 82

                            90       100       110       120       130       140
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334183580    848 FLDEVESMLHRYRLKTKNEFIINWDGLRTNEKERVLVLAATNRPFDLDEAVIR-RLPHRLMVGLPD 912
Cdd:smart00382   83 ILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRrRFDRRIVLLLIL 148
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 932-972 2.05e-08

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: 51.00  E-value: 2.05e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 334183580   932 DFDIDEVASMTNGYSGNDLKNLCVTAAR---RRIIEIVEKEKSE 972
Cdd:pfam17862    1 DVDLEELAERTEGFSGADLEALCREAALaalRRGLEAVTQEDLE 44
FHA_RAD53-like_rpt2 cd22690
second forkhead associated (FHA) domain found in Saccharomyces cerevisiae Serine ...
 93-193 2.51e-05

second forkhead associated (FHA) domain found in Saccharomyces cerevisiae Serine/threonine-protein kinase RAD53 and similar proteins; RAD53, also called CHEK2 homolog, or serine-protein kinase 1 (Spk1), is a nuclear protein kinase that phosphorylates proteins on serine, threonine, and tyrosine. It controls S-phase checkpoint as well as G1 and G2 DNA damage checkpoints and prevents entry into anaphase and mitotic exit after DNA damage via regulation of the Polo kinase CDC5. It may be involved in the phosphorylation of RPH1. RAD53 contains two FHA domains. This model corresponds to the second one. The FHA domain is a small phosphopeptide recognition module.


Pssm-ID: 438742 [Multi-domain]  Cd Length: 105  Bit Score: 44.21  E-value: 2.51e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   93 WCKLLSQSAKQQNLCLYESSCTFGSCLTSDFTLHDRNLGAFLCKITRI--QRNGNVVAVLDiTGTGGPLrINKAFVIKNV 170
Cdd:cd22690     1 WGRLKSLNPSYPDIELTQNTTFIGRSKDCDEEITDPRISKHHCIITRKrsGKGLDDVYVTD-TSTNGTF-INNNRLGKGS 78

                          90       100
                  ....*....|....*....|....*..
gi 334183580  171 SHELHSGDELVF----GLNRSYAFIYQ 193
Cdd:cd22690    79 QSLLQDGDEIVLiwdkNNKEKIGFIFQ 105
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 791-812 3.39e-03

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 40.15  E-value: 3.39e-03
                          10        20
                  ....*....|....*....|..
gi 334183580  791 ILLFGPSGTGKTMLAKAVATEA 812
Cdd:NF038214   93 VLLLGPPGTGKTHLAIALGYAA 114
 
Name Accession Description Interval E-value
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 754-908 3.73e-72

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: 236.17  E-value: 3.73e-72
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFCKGQLTKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMSMS----RWFSEGE 829
Cdd:cd19520     1 DIGGLDEVITELKELVILPLQRPELFDNSRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSsltdKWYGESQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESML-------HRYRLKTKNEFIINWDGLRTNEKERVLVLAATNRPFDLDEAVIRRL 902
Cdd:cd19520    81 KLVAAVFSLASKLQPSIIFIDEIDSFLrqrsstdHEATAMMKAEFMSLWDGLSTDGNCRVIVMGATNRPQDLDEAILRRM 160


                  ....*.
gi 334183580  903 PHRLMV 908
Cdd:cd19520   161 PKRFHI 166
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 705-1016 3.90e-65

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 222.96  E-value: 3.90e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  705 RVILSLESLKCGIELLEIESKKSLKDIVTENTFEISDIIPpseiGVTFDDIGALENVKDTLKELVMLPFQWPELFCKGQL 784
Cdd:COG1222    34 QPVKALELLEEAPALLLNDANLTQKRLGTPRGTAVPAESP----DVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGI 109

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  785 tKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVKAVFSLASKISPSIIFLDEVESMLHRyR 860
Cdd:COG1222   110 -EPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRgselVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAAR-R 187

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  861 L---------KTKNEFIINWDGLrtNEKERVLVLAATNRPFDLDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDL 929
Cdd:COG1222   188 TddgtsgevqRTVNQLLAELDGF--ESRGDVLIIAATNRPDLLDPALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPL 265

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  930 SPDFDIDEVASMTNGYSGNDLKNLCVTAARRriieivekekserdaAVAEGRvppagsggsdlRVLKMEDFRNALELVSM 1009
Cdd:COG1222   266 ADDVDLDKLAKLTEGFSGADLKAIVTEAGMF---------------AIREGR-----------DTVTMEDLEKAIEKVKK 319


                  ....*..
gi 334183580 1010 SISSKSV 1016
Cdd:COG1222   320 KTETATN 326
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 752-1011 2.40e-57

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: 203.60  E-value: 2.40e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  752 FDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSE 827
Cdd:COG0464   156 LDDLGGLEEVKEELRELVALPLKRPELREEYGLPPP-RGLLLYGPPGTGKTLLARALAGELGLPLIEVDlsdlVSKYVGE 234

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  828 GEKYVKAVFSLASKISPSIIFLDEVESmLHRYRLKTKNEF---IIN----W-DGLRtnekERVLVLAATNRPFDLDEAVI 899
Cdd:COG0464   235 TEKNLREVFDKARGLAPCVLFIDEADA-LAGKRGEVGDGVgrrVVNtlltEmEELR----SDVVVIAATNRPDLLDPALL 309

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  900 RRLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDLKNLCVTAARRriieivekekserdaAVAE 979
Cdd:COG0464   310 RRFDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQ---------------ALRL 374

                         250       260       270
                  ....*....|....*....|....*....|..
gi 334183580  980 GRVPpagsggsdlrvLKMEDFRNALELVSMSI 1011
Cdd:COG0464   375 GREP-----------VTTEDLLEALEREDIFL 395
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 755-908 1.51e-53

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: 184.09  E-value: 1.51e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  755 IGALENVKDTLKELVMLPFQWPELFcKGqLTKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEK 830
Cdd:cd19509     1 IAGLDDAKEALKEAVILPSLRPDLF-PG-LRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISasslVSKWVGESEK 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  831 YVKAVFSLASKISPSIIFLDEVESMLHRYRL-------KTKNEFIINWDGLRTNEKERVLVLAATNRPFDLDEAVIRRLP 903
Cdd:cd19509    79 IVRALFALARELQPSIIFIDEIDSLLSERGSgeheasrRVKTEFLVQMDGVLNKPEDRVLVLGATNRPWELDEAFLRRFE 158


                  ....*
gi 334183580  904 HRLMV 908
Cdd:cd19509   159 KRIYI 163
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 725-1029 2.44e-49

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: 187.81  E-value: 2.44e-49
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   725 KKSLKDIVTENTFEISDIIPpseiGVTFDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTML 804
Cdd:TIGR01243  429 MEALKMVEPSAIREVLVEVP----NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPP-KGVLLFGPPGTGKTLL 503

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   805 AKAVATEAGANLINMS----MSRWFSEGEKYVKAVFSLASKISPSIIFLDEVESMLHR--YRLKTK------NEFIINWD 872
Cdd:TIGR01243  504 AKAVATESGANFIAVRgpeiLSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPArgARFDTSvtdrivNQLLTEMD 583

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   873 GLRtnEKERVLVLAATNRPFDLDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDL 950
Cdd:TIGR01243  584 GIQ--ELSNVVVIAATNRPDILDPALLRpgRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADI 661

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   951 KNLC---VTAARRRIIEIVEKEKSERDAAVAEGRVppagsggsdlrVLKMEDFRNALELVSMSISSKsvNMTALRQWNED 1027
Cdd:TIGR01243  662 EAVCreaAMAALRESIGSPAKEKLEVGEEEFLKDL-----------KVEMRHFLEALKKVKPSVSKE--DMLRYERLAKE 728


                   ..
gi 334183580  1028 YG 1029
Cdd:TIGR01243  729 LK 730
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 754-908 2.73e-46

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: 163.48  E-value: 2.73e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFCKgqLTKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGE 829
Cdd:cd19524     1 DIAGQDLAKQALQEMVILPSLRPELFTG--LRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISaaslTSKYVGEGE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESML-------HRYRLKTKNEFIINWDGLRTNEKERVLVLAATNRPFDLDEAVIRRL 902
Cdd:cd19524    79 KLVRALFAVARELQPSIIFIDEVDSLLsersegeHEASRRLKTEFLIEFDGVQSNGDDRVLVMGATNRPQELDDAVLRRF 158


                  ....*.
gi 334183580  903 PHRLMV 908
Cdd:cd19524   159 TKRVYV 164
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 738-908 1.10e-45

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: 162.46  E-value: 1.10e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  738 EISDIIPPseigVTFDDIGALENVKDTLKELVMLPFQWPELFCKgqLTKPCNGILLFGPSGTGKTMLAKAVATEAGANLI 817
Cdd:cd19525    11 EIMDHGPP----INWADIAGLEFAKKTIKEIVVWPMLRPDIFTG--LRGPPKGILLFGPPGTGKTLIGKCIASQSGATFF 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  818 NMS----MSRWFSEGEKYVKAVFSLASKISPSIIFLDEVESML-------HRYRLKTKNEFIINWDGLRTNEKERVLVLA 886
Cdd:cd19525    85 SISasslTSKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLsqrgegeHESSRRIKTEFLVQLDGATTSSEDRILVVG 164

                         170       180
                  ....*....|....*....|..
gi 334183580  887 ATNRPFDLDEAVIRRLPHRLMV 908
Cdd:cd19525   165 ATNRPQEIDEAARRRLVKRLYI 186
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 736-1007 8.08e-45

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 166.93  E-value: 8.08e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  736 TFEISDIIPPS--------EI----GVTFDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTM 803
Cdd:PRK03992  102 SLAIVEVLPSEkdprvqamEViespNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPP-KGVLLYGPPGTGKTL 180

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  804 LAKAVATEAGANLINMSMS----RWFSEGEKYVKAVFSLASKISPSIIFLDE---VESMlhRYRLKTKNEFIINwdglRT 876
Cdd:PRK03992  181 LAKAVAHETNATFIRVVGSelvqKFIGEGARLVRELFELAREKAPSIIFIDEidaIAAK--RTDSGTSGDREVQ----RT 254

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  877 -----------NEKERVLVLAATNRPFDLDEAVIRrlPHR----LMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASM 941
Cdd:PRK03992  255 lmqllaemdgfDPRGNVKIIAATNRIDILDPAILR--PGRfdriIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAEL 332

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334183580  942 TNGYSGNDLKNLCVTA---ARRRiieivekeksERDaavaegrvppagsggsdlrVLKMEDFRNALELV 1007
Cdd:PRK03992  333 TEGASGADLKAICTEAgmfAIRD----------DRT-------------------EVTMEDFLKAIEKV 372
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 750-1010 1.38e-43

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: 170.09  E-value: 1.38e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   750 VTFDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWF 825
Cdd:TIGR01243  175 VTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPP-KGVLLYGPPGTGKTLLAKAVANEAGAYFISINgpeiMSKYY 253

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   826 SEGEKYVKAVFSLASKISPSIIFLDEVESMLHRYRLKTKN-------EFIINWDGLRtnEKERVLVLAATNRPFDLDEAV 898
Cdd:TIGR01243  254 GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEvekrvvaQLLTLMDGLK--GRGRVIVIGATNRPDALDPAL 331

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   899 IR--RLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDLKNLCVTAARRRIIEIVEKEKSERDAA 976
Cdd:TIGR01243  332 RRpgRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREGKINFEAE 411

                          250       260       270
                   ....*....|....*....|....*....|....*.
gi 334183580   977 VAEGRVppagsggsdLRVLK--MEDFRNALELVSMS 1010
Cdd:TIGR01243  412 EIPAEV---------LKELKvtMKDFMEALKMVEPS 438
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 750-908 2.14e-40

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: 146.93  E-value: 2.14e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  750 VTFDDIGALENVKDTLKELVMLPFQWPELFCKGQltKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWF 825
Cdd:cd19521     4 VKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNR--KPWSGILLYGPPGTGKSYLAKAVATEANSTFFSVSssdlVSKWM 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  826 SEGEKYVKAVFSLASKISPSIIFLDEVESML---------HRYRLKTknEFIINWDGLrTNEKERVLVLAATNRPFDLDE 896
Cdd:cd19521    82 GESEKLVKQLFAMARENKPSIIFIDEVDSLCgtrgegeseASRRIKT--ELLVQMNGV-GNDSQGVLVLGATNIPWQLDS 158

                         170
                  ....*....|..
gi 334183580  897 AVIRRLPHRLMV 908
Cdd:cd19521   159 AIRRRFEKRIYI 170
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 754-908 2.19e-38

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: 140.89  E-value: 2.19e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFcKGqLTKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGE 829
Cdd:cd19522     1 DIADLEEAKKLLEEAVVLPMWMPEFF-KG-IRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSsstlTSKYRGESE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESML--------HRYRLKTKNEFIINWDGL---RTNEKER--VLVLAATNRPFDLDE 896
Cdd:cd19522    79 KLVRLLFEMARFYAPTTIFIDEIDSICsrrgtseeHEASRRVKSELLVQMDGVggaSENDDPSkmVMVLAATNFPWDIDE 158

                         170
                  ....*....|..
gi 334183580  897 AVIRRLPHRLMV 908
Cdd:cd19522   159 ALRRRLEKRIYI 170
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
747-972 5.82e-37

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 148.64  E-value: 5.82e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  747 EIGVTFDDIGALENVKDTLKELVMLpFQWPELFCK--GQLTKpcnGILLFGPSGTGKTMLAKAVATEAGANLINMSMSRw 824
Cdd:PRK10733  146 QIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKlgGKIPK---GVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSD- 220

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  825 FSE-----GEKYVKAVFSLASKISPSIIFLDEVESML----------HRYRLKTKNEFIINWDGLRTNEKerVLVLAATN 889
Cdd:PRK10733  221 FVEmfvgvGASRVRDMFEQAKKAAPCIIFIDEIDAVGrqrgaglgggHDEREQTLNQMLVEMDGFEGNEG--IIVIAATN 298

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  890 RPFDLDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDLKNLCVTAA------RRR 961
Cdd:PRK10733  299 RPDVLDPALLRpgRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAAlfaargNKR 378

                         250
                  ....*....|.
gi 334183580  962 IIEIVEKEKSE 972
Cdd:PRK10733  379 VVSMVEFEKAK 389
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 791-910 2.26e-36

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: 133.87  E-value: 2.26e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   791 ILLFGPSGTGKTMLAKAVATEAGANLINMSMSR----WFSEGEKYVKAVFSLASKISPSIIFLDEVESML-------HRY 859
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSElvskYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAgsrgsggDSE 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 334183580   860 RLKTKNEFIINWDGLrTNEKERVLVLAATNRPFDLDEAVIRRLPHRLMVGL 910
Cdd:pfam00004   81 SRRVVNQLLTELDGF-TSSNSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
ftsH CHL00176
cell division protein; Validated
 749-969 3.64e-36

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 146.35  E-value: 3.64e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  749 GVTFDDIGALENVKDTLKELVMLpFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMSMSRwFSE- 827
Cdd:CHL00176  179 GITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIP-KGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSE-FVEm 255

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  828 ----GEKYVKAVFSLASKISPSIIFLDEVESM----------LHRYRLKTKNEFIINWDGLRTNEKerVLVLAATNRPFD 893
Cdd:CHL00176  256 fvgvGAARVRDLFKKAKENSPCIVFIDEIDAVgrqrgagiggGNDEREQTLNQLLTEMDGFKGNKG--VIVIAATNRVDI 333

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  894 LDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDLKNL----CVTAARRRIIEIVE 967
Cdd:CHL00176  334 LDAALLRpgRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLlneaAILTARRKKATITM 413


                  ..
gi 334183580  968 KE 969
Cdd:CHL00176  414 KE 415
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
752-964 5.52e-36

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 136.94  E-value: 5.52e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  752 FDDIGALENVKDTLKELVMLPFQWPELFCKGQltKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSE 827
Cdd:COG1223     1 LDDVVGQEEAKKKLKLIIKELRRRENLRKFGL--WPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRldslIGSYLGE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  828 GEKYVKAVFSLAsKISPSIIFLDEVESMLHRYRLKTK--------NEFIINWDGLrtneKERVLVLAATNRPFDLDEAVI 899
Cdd:COG1223    79 TARNLRKLFDFA-RRAPCVIFFDEFDAIAKDRGDQNDvgevkrvvNALLQELDGL----PSGSVVIAATNHPELLDSALW 153

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334183580  900 RRLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDLKNLCVTAARRRIIE 964
Cdd:COG1223   154 RRFDEVIEFPLPDKEERKEILELNLKKFPLPFELDLKKLAKKLEGLSGADIEKVLKTALKKAILE 218
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 739-957 4.04e-35

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 138.74  E-value: 4.04e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  739 ISDIIPP---SEI---------GVTFDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAK 806
Cdd:PTZ00454  119 VVDILPPeadSSIqllqmsekpDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPP-RGVLLYGPPGTGKTMLAK 197

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  807 AVATEAGANLINMSMS----RWFSEGEKYVKAVFSLASKISPSIIFLDEVESM-LHRYRLKTKN---------EFIINWD 872
Cdd:PTZ00454  198 AVAHHTTATFIRVVGSefvqKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIaTKRFDAQTGAdrevqrillELLNQMD 277

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  873 GLrtNEKERVLVLAATNRPFDLDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDL 950
Cdd:PTZ00454  278 GF--DQTTNVKVIMATNRADTLDPALLRpgRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADI 355


                  ....*..
gi 334183580  951 KNLCVTA 957
Cdd:PTZ00454  356 AAICQEA 362
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 754-906 7.47e-35

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: 130.87  E-value: 7.47e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFCKGQLtKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGE 829
Cdd:cd19503     1 DIGGLDEQIASLKELIELPLKYPELFRALGL-KPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISgpsiVSKYLGESE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESMLHRyRLKTKNE--------FIINWDGLrtNEKERVLVLAATNRPFDLDEAvIRR 901
Cdd:cd19503    80 KNLREIFEEARSHAPSIIFIDEIDALAPK-REEDQREverrvvaqLLTLMDGM--SSRGKVVVIAATNRPDAIDPA-LRR 155


                  ....*
gi 334183580  902 lPHRL 906
Cdd:cd19503   156 -PGRF 159
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 761-906 8.87e-35

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: 130.31  E-value: 8.87e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  761 VKDTLKELVMLPFQWPELFCKGQLtKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVKAVF 836
Cdd:cd19529     1 VKQELKEAVEWPLLKPEVFKRLGI-RPPKGILLYGPPGTGKTLLAKAVATESNANFISVKgpelLSKWVGESEKAIREIF 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 334183580  837 SLASKISPSIIFLDEVESMLHRYRL--------KTKNEFIINWDGLRtnEKERVLVLAATNRPFDLDEAVIRrlPHRL 906
Cdd:cd19529    80 RKARQVAPCVIFFDEIDSIAPRRGTtgdsgvteRVVNQLLTELDGLE--EMNGVVVIAATNRPDIIDPALLR--AGRF 153
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 761-908 1.03e-34

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: 130.10  E-value: 1.03e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  761 VKDTLKELVMLPFQWPELFCKGQLTKPcnGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVKAVF 836
Cdd:cd19481     1 LKASLREAVEAPRRGSRLRRYGLGLPK--GILLYGPPGTGKTLLAKALAGELGLPLIVVKlsslLSKYVGESEKNLRKIF 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  837 SLASKISPSIIFLDEVESML--------HRYRLKTKNEFIINWDGLrtNEKERVLVLAATNRPFDLDEAVIRrlPHRLMV 908
Cdd:cd19481    79 ERARRLAPCILFIDEIDAIGrkrdssgeSGELRRVLNQLLTELDGV--NSRSKVLVIAATNRPDLLDPALLR--PGRFDE 154
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 761-906 1.31e-33

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: 127.01  E-value: 1.31e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  761 VKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVKAVF 836
Cdd:cd19511     1 VKRELKEAVEWPLKHPDAFKRLGIRPP-KGVLLYGPPGCGKTLLAKALASEAGLNFISVKgpelFSKYVGESERAVREIF 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334183580  837 SLASKISPSIIFLDEVESMLHRyRLKTK---------NEFIINWDGLrtNEKERVLVLAATNRPFDLDEAVIRrlPHRL 906
Cdd:cd19511    80 QKARQAAPCIIFFDEIDSLAPR-RGQSDssgvtdrvvSQLLTELDGI--ESLKGVVVIAATNRPDMIDPALLR--PGRL 153
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
742-961 2.84e-32

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 133.62  E-value: 2.84e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  742 IIPPSEIGVTFDDIGALENVKDTLKELV-MLpfQWPELFCK--GQLTKpcnGILLFGPSGTGKTMLAKAVATEAGANLIN 818
Cdd:COG0465   131 LYDEDKPKVTFDDVAGVDEAKEELQEIVdFL--KDPEKFTRlgAKIPK---GVLLVGPPGTGKTLLAKAVAGEAGVPFFS 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  819 MSMSRwFSE-----GEKYVKAVFSLASKISPSIIFLDE---------------------------VEsMlhryrlktkne 866
Cdd:COG0465   206 ISGSD-FVEmfvgvGASRVRDLFEQAKKNAPCIIFIDEidavgrqrgaglggghdereqtlnqllVE-M----------- 272

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  867 fiinwDGLRTNEkeRVLVLAATNRPfD-LDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTN 943
Cdd:COG0465   273 -----DGFEGNE--GVIVIAATNRP-DvLDPALLRpgRFDRQVVVDLPDVKGREAILKVHARKKPLAPDVDLEVIARRTP 344

                         250       260
                  ....*....|....*....|..
gi 334183580  944 GYSGNDLKNLC----VTAARRR 961
Cdd:COG0465   345 GFSGADLANLVneaaLLAARRN 366
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 761-906 8.32e-32

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: 121.85  E-value: 8.32e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  761 VKDTLKELVMLPFQWPELFCKGQLTkPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVKAVF 836
Cdd:cd19528     1 VKRELQELVQYPVEHPDKFLKFGMT-PSKGVLFYGPPGCGKTLLAKAIANECQANFISVKgpelLTMWFGESEANVRDIF 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  837 SLASKISPSIIFLDEVESmLHRYRL-----------KTKNEFIINWDGLrtNEKERVLVLAATNRPFDLDEAVIRrlPHR 905
Cdd:cd19528    80 DKARAAAPCVLFFDELDS-IAKARGgnigdaggaadRVINQILTEMDGM--NTKKNVFIIGATNRPDIIDPAILR--PGR 154


                  .
gi 334183580  906 L 906
Cdd:cd19528   155 L 155
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 751-957 1.91e-31

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 128.74  E-value: 1.91e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  751 TFDDIGALENVKDTLKELVMLPFQWPELFCKGQLtKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMSMS----RWFS 826
Cdd:PTZ00361  181 SYADIGGLEQQIQEIKEAVELPLTHPELYDDIGI-KPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSeliqKYLG 259

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  827 EGEKYVKAVFSLASKISPSIIFLDEVESM-LHRYRL---------KTKNEFIINWDGLrtNEKERVLVLAATNRPFDLDE 896
Cdd:PTZ00361  260 DGPKLVRELFRVAEENAPSIVFIDEIDAIgTKRYDAtsggekeiqRTMLELLNQLDGF--DSRGDVKVIMATNRIESLDP 337

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 334183580  897 AVIR--RLPHRLMVGLPDARSRSKILKVILSKEDLSPDFDIDEVASMTNGYSGNDLKNLCVTA 957
Cdd:PTZ00361  338 ALIRpgRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEA 400
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 754-900 1.14e-30

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: 118.69  E-value: 1.14e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFCKGQLtKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGE 829
Cdd:cd19519     1 DIGGCRKQLAQIREMVELPLRHPELFKAIGI-KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINgpeiMSKLAGESE 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESMLHRyRLKTKNE--------FIINWDGLRTNekERVLVLAATNRPFDLDEAVIR 900
Cdd:cd19519    80 SNLRKAFEEAEKNAPAIIFIDEIDAIAPK-REKTHGEverrivsqLLTLMDGLKQR--AHVIVMAATNRPNSIDPALRR 155
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 751-906 1.69e-30

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: 118.59  E-value: 1.69e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  751 TFDDIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMSMS----RWFS 826
Cdd:cd19502     1 TYEDIGGLDEQIREIREVVELPLKHPELFEELGIEPP-KGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSelvqKYIG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  827 EGEKYVKAVFSLASKISPSIIFLDEVESMLHRyRL-----------KTKNEFIINWDGLrtNEKERVLVLAATNRPFDLD 895
Cdd:cd19502    80 EGARLVRELFEMAREKAPSIIFIDEIDAIGAK-RFdsgtggdrevqRTMLELLNQLDGF--DPRGNIKVIMATNRPDILD 156

                         170
                  ....*....|.
gi 334183580  896 EAVIRrlPHRL 906
Cdd:cd19502   157 PALLR--PGRF 165
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 750-906 9.98e-30

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: 116.18  E-value: 9.98e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  750 VTFDDIGALENVKDTLKELVMLpFQWPELFCK-GqlTKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMSMSRwFSE- 827
Cdd:cd19501     1 VTFKDVAGCEEAKEELKEVVEF-LKNPEKFTKlG--AKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSD-FVEm 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  828 ----GEKYVKAVFSLASKISPSIIFLDEVESM----------LHRYRLKTKNEFIINWDGLRTNEKerVLVLAATNRPFD 893
Cdd:cd19501    77 fvgvGASRVRDLFEQAKKNAPCIVFIDEIDAVgrkrgaglggGHDEREQTLNQLLVEMDGFESNTG--VIVIAATNRPDV 154

                         170
                  ....*....|...
gi 334183580  894 LDEAVIRrlPHRL 906
Cdd:cd19501   155 LDPALLR--PGRF 165
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 754-908 5.82e-28

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: 110.74  E-value: 5.82e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFckGQLTKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMSMS----RWFSEGE 829
Cdd:cd19523     1 DIAGLGALKAAIKEEVLWPLLRPDAF--SGLLRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGStlvaKWAGEGE 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESML------HRYRLKTKNEFIINWDGLRTNEKERVLVLAATNRPFDLDEAVIRRLP 903
Cdd:cd19523    79 KILQASFLAARCRQPSVLFISDLDALLssqddeASPVGRLQVELLAQLDGVLGSGEDGVLVVCTTSKPEEIDESLRRYFS 158


                  ....*
gi 334183580  904 HRLMV 908
Cdd:cd19523   159 KRLLV 163
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 754-900 5.30e-25

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: 102.59  E-value: 5.30e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEA--GANLINMSM-------SRW 824
Cdd:cd19517     1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITPP-RGVLFHGPPGTGKTLMARALAAECskGGQKVSFFMrkgadclSKW 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  825 FSEGEKYVKAVFSLASKISPSIIFLDEVESmLHRYRlKTKNEFIIN---------WDGLRTneKERVLVLAATNRPFDLD 895
Cdd:cd19517    80 VGEAERQLRLLFEEAYRMQPSIIFFDEIDG-LAPVR-SSKQEQIHAsivstllalMDGLDN--RGQVVVIGATNRPDALD 155


                  ....*
gi 334183580  896 EAVIR 900
Cdd:cd19517   156 PALRR 160
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 758-906 4.47e-24

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: 99.87  E-value: 4.47e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  758 LENVKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVK 833
Cdd:cd19530     1 LDHVREELTMSILRPIKRPDIYKALGIDLP-TGVLLYGPPGCGKTLLAKAVANESGANFISVKgpelLNKYVGESERAVR 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  834 AVFSLASKISPSIIFLDEVESMLHRY-------RLKTKNEFIINWDGLrtNEKERVLVLAATNRPFDLDEAVIRrlPHRL 906
Cdd:cd19530    80 QVFQRARASAPCVIFFDEVDALVPKRgdggswaSERVVNQLLTEMDGL--EERSNVFVIAATNRPDIIDPAMLR--PGRL 155
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 754-901 9.72e-23

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: 95.93  E-value: 9.72e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMLPFQWPELFCKGQLtKPCNGILLFGPSGTGKTMLAKAVATEAGANLINMSMSRWFS----EGE 829
Cdd:cd19518     1 DIGGMDSTLKELCELLIHPILPPEYFQHLGV-EPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSgvsgESE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVESMLHRYRLKTKN-------EFIINWDGLRTNE--KERVLVLAATNRPFDLDEAvIR 900
Cdd:cd19518    80 EKIRELFDQAISNAPCIVFIDEIDAITPKRESAQREmerrivsQLLTCMDELNNEKtaGGPVLVIGATNRPDSLDPA-LR 158


                  .
gi 334183580  901 R 901
Cdd:cd19518   159 R 159
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 761-906 1.01e-21

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: 92.96  E-value: 1.01e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  761 VKDTLKELVMLPFQWPELFCKGqlTKPCNGILLFGPSGTGKTMLAKAVATE--------AGANLINMsmsrWFSEGEKYV 832
Cdd:cd19527     1 VKKEILDTIQLPLEHPELFSSG--LRKRSGILLYGPPGTGKTLLAKAIATEcslnflsvKGPELINM----YIGESEANV 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  833 KAVFSLASKISPSIIFLDEVESML-HRYRL--------KTKNEFIINWDGLRTNeKERVLVLAATNRPFDLDEAVIRrlP 903
Cdd:cd19527    75 REVFQKARDAKPCVIFFDELDSLApSRGNSgdsggvmdRVVSQLLAELDGMSSS-GQDVFVIGATNRPDLLDPALLR--P 151


                  ...
gi 334183580  904 HRL 906
Cdd:cd19527   152 GRF 154
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 761-906 1.10e-21

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: 92.88  E-value: 1.10e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  761 VKDTLKELVMLPFQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMS----MSRWFSEGEKYVKAVF 836
Cdd:cd19526     1 VKKALEETIEWPSKYPKIFASSPLRLR-SGILLYGPPGCGKTLLASAIASECGLNFISVKgpelLNKYIGASEQNVRDLF 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334183580  837 SLASKISPSIIFLDEVESMLHR-------YRLKTKNEFIINWDGLRTNEKerVLVLAATNRPFDLDEAVIRrlPHRL 906
Cdd:cd19526    80 SRAQSAKPCILFFDEFDSIAPKrghdstgVTDRVVNQLLTQLDGVEGLDG--VYVLAATSRPDLIDPALLR--PGRL 152
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 789-910 5.25e-18

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: 81.81  E-value: 5.25e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  789 NGILLFGPSGTGKTMLAKAVATEA---GANLINMSMSRWFSE-------GEKYVKAVFSLASKISPSIIFLDEVESMlhR 858
Cdd:cd00009    20 KNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGlvvaelfGHFLVRLLFELAEKAKPGVLFIDEIDSL--S 97

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 334183580  859 YRLKTKNEFIINWDGLRTNEKERVLVLAATNRPF--DLDEAVIRRLPHRLMVGL 910
Cdd:cd00009    98 RGAQNALLRVLETLNDLRIDRENVRVIGATNRPLlgDLDRALYDRLDIRIVIPL 151
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 789-912 1.01e-17

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: 80.88  E-value: 1.01e-17
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580    789 NGILLFGPSGTGKTMLAKAVATEAGAN-----LINMSMSR----------------WFSEGEKYVKAVFSLASKISPSII 847
Cdd:smart00382    3 EVILIVGPPGSGKTTLARALARELGPPgggviYIDGEDILeevldqllliivggkkASGSGELRLRLALALARKLKPDVL 82

                            90       100       110       120       130       140
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334183580    848 FLDEVESMLHRYRLKTKNEFIINWDGLRTNEKERVLVLAATNRPFDLDEAVIR-RLPHRLMVGLPD 912
Cdd:smart00382   83 ILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRrRFDRRIVLLLIL 148
ycf46 CHL00195
Ycf46; Provisional
 738-947 3.70e-15

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 79.29  E-value: 3.70e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  738 EISDIIPPSEigvTFDDIGALENVKDTLKelvmlpfQWPELFCKGQ----LTKPcNGILLFGPSGTGKTMLAKAVATEAG 813
Cdd:CHL00195  216 EILEFYSVNE---KISDIGGLDNLKDWLK-------KRSTSFSKQAsnygLPTP-RGLLLVGIQGTGKSLTAKAIANDWQ 284

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  814 ANLINMSMSRWFS----EGEKYVKAVFSLASKISPSIIFLDEVESMLHRYRLK----TKNEFI---INWdglrTNEKER- 881
Cdd:CHL00195  285 LPLLRLDVGKLFGgivgESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKgdsgTTNRVLatfITW----LSEKKSp 360

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 334183580  882 VLVLAATNRPFDLDEAVIR--RLPHRLMVGLPDARSRSKILKVILSKedLSPD----FDIDEVASMTNGYSG 947
Cdd:CHL00195  361 VFVVATANNIDLLPLEILRkgRFDEIFFLDLPSLEEREKIFKIHLQK--FRPKswkkYDIKKLSKLSNKFSG 430
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 760-895 4.74e-12

ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein regulatory complex subunit 11, DRC11 and IQCA) is an ATPase subunit of the nexin-dynein regulatory complex (N-DRC). The 9 + 2 axoneme of most motile cilia and flagella consists of nine outer doublet microtubules arranged in a ring surrounding a central pair of two singlet microtubules. The N-DRC complex maintains alignment between outer doublet microtubules and limits microtubule sliding in motile axonemes. 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: 410914 [Multi-domain]  Cd Length: 160  Bit Score: 65.24  E-value: 4.74e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  760 NVKDTLKELVMLPFQWPELFCKGQLTKpcnGILLFGPSGTGKTMLAKAVATEAGANLINMSMSrwfSEGEKY-------- 831
Cdd:cd19506     1 DVRQLLTLYGILPLGSQAVHEKAPLVK---SLLLAGPSGVGKKMLVHAICTETGANLFNLSPS---NIAGKYpgknglqm 74

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 334183580  832 -VKAVFSLASKISPSIIFLDEVESMLhrYRLKTKNEFIINWDGLRTN---------EKERVLVLAATNRPFDLD 895
Cdd:cd19506    75 mLHLVLKVARQLQPSVIWIGDAEKTF--YKKVPKTEKQLDPKRLKKDlpkilkslkPEDRVLIVGTTSRPFEAD 146
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 754-854 7.22e-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: 64.70  E-value: 7.22e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  754 DIGALENVKDTLKELVMlpfQWPELFCKGQLTKPcNGILLFGPSGTGKTMLAKAVATEAGANLINMSMSRWFS----EGE 829
Cdd:cd19507     1 DVGGLDNLKDWLKKRKA---AFSKQASAYGLPTP-KGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGglvgESE 76

                          90       100
                  ....*....|....*....|....*
gi 334183580  830 KYVKAVFSLASKISPSIIFLDEVES 854
Cdd:cd19507    77 SRLRQMIQTAEAIAPCVLWIDEIEK 101
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 791-902 6.85e-09

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: 55.61  E-value: 6.85e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  791 ILLFGPSGTGKTMLAKAVATEAGANLINMS------MSRwfsEGEKYVKAVFSLASKISPS-IIFLDEVESMLhRYRLKT 863
Cdd:cd19512    25 ILFYGPPGTGKTLFAKKLALHSGMDYAIMTggdvapMGR---EGVTAIHKVFDWANTSRRGlLLFVDEADAFL-RKRSTE 100

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 334183580  864 K---------NEFIinwdgLRTNEKER--VLVLaATNRPFDLDEAVIRRL 902
Cdd:cd19512   101 KisedlraalNAFL-----YRTGEQSNkfMLVL-ASNQPEQFDWAINDRI 144
PRK04195 PRK04195
replication factor C large subunit; Provisional
 751-950 7.59e-09

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 59.55  E-value: 7.59e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  751 TFDDIGALENVKDTLKElvmlpfqWPELFCKGQLTKPcngILLFGPSGTGKTMLAKAVATEAGANLI--NMSMSRWFSEG 828
Cdd:PRK04195   12 TLSDVVGNEKAKEQLRE-------WIESWLKGKPKKA---LLLYGPPGVGKTSLAHALANDYGWEVIelNASDQRTADVI 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  829 EKYVKAvfslASKISP------SIIFLDEVesmlhryrlktknefiinwDGLRTNEKE-------RVL-------VLAAt 888
Cdd:PRK04195   82 ERVAGE----AATSGSlfgarrKLILLDEV-------------------DGIHGNEDRggarailELIkkakqpiILTA- 137

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 334183580  889 NRPFDLDEAVIRrlPHRLMVGLPDARSRS--KILKVILSKEDLS-PDFDIDEVASMTNG---YSGNDL 950
Cdd:PRK04195  138 NDPYDPSLRELR--NACLMIEFKRLSTRSivPVLKRICRKEGIEcDDEALKEIAERSGGdlrSAINDL 203
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 932-972 2.05e-08

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: 51.00  E-value: 2.05e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 334183580   932 DFDIDEVASMTNGYSGNDLKNLCVTAAR---RRIIEIVEKEKSE 972
Cdd:pfam17862    1 DVDLEELAERTEGFSGADLEALCREAALaalRRGLEAVTQEDLE 44
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 786-908 1.92e-07

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: 52.11  E-value: 1.92e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  786 KPCNGILLFGPSGTGKTMLAKAVATEAGA---NLINMS--MSRWFSEGEKYVKAVFS--------LASKISPSIIFLDEV 852
Cdd:cd19504    33 KHVKGILLYGPPGTGKTLMARQIGKMLNArepKIVNGPeiLNKYVGESEANIRKLFAdaeeeqrrLGANSGLHIIIFDEI 112

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334183580  853 ESMLhRYRLKTK----------NEFIINWDGLrtNEKERVLVLAATNRPFDLDEAVIRrlPHRLMV 908
Cdd:cd19504   113 DAIC-KQRGSMAgstgvhdtvvNQLLSKIDGV--EQLNNILVIGMTNRKDLIDEALLR--PGRLEV 173
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 791-929 1.03e-05

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 49.31  E-value: 1.03e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  791 ILLFGPSGTGKTMLAKAVATEAGANLINMSMSrwfSEGEKYVKAVFSLASKISPS----IIFLDEVesmlHRYRlKTKNE 866
Cdd:PRK13342   39 MILWGPPGTGKTTLARIIAGATDAPFEALSAV---TSGVKDLREVIEEARQRRSAgrrtILFIDEI----HRFN-KAQQD 110

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 334183580  867 FIINW--DGLrtnekerVLVLAAT--NRPFdldeAVIRRLphrlmvglpdaRSRSKILKVI-LSKEDL 929
Cdd:PRK13342  111 ALLPHveDGT-------ITLIGATteNPSF----EVNPAL-----------LSRAQVFELKpLSEEDI 156
FHA_RAD53-like_rpt2 cd22690
second forkhead associated (FHA) domain found in Saccharomyces cerevisiae Serine ...
 93-193 2.51e-05

second forkhead associated (FHA) domain found in Saccharomyces cerevisiae Serine/threonine-protein kinase RAD53 and similar proteins; RAD53, also called CHEK2 homolog, or serine-protein kinase 1 (Spk1), is a nuclear protein kinase that phosphorylates proteins on serine, threonine, and tyrosine. It controls S-phase checkpoint as well as G1 and G2 DNA damage checkpoints and prevents entry into anaphase and mitotic exit after DNA damage via regulation of the Polo kinase CDC5. It may be involved in the phosphorylation of RPH1. RAD53 contains two FHA domains. This model corresponds to the second one. The FHA domain is a small phosphopeptide recognition module.


Pssm-ID: 438742 [Multi-domain]  Cd Length: 105  Bit Score: 44.21  E-value: 2.51e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   93 WCKLLSQSAKQQNLCLYESSCTFGSCLTSDFTLHDRNLGAFLCKITRI--QRNGNVVAVLDiTGTGGPLrINKAFVIKNV 170
Cdd:cd22690     1 WGRLKSLNPSYPDIELTQNTTFIGRSKDCDEEITDPRISKHHCIITRKrsGKGLDDVYVTD-TSTNGTF-INNNRLGKGS 78

                          90       100
                  ....*....|....*....|....*..
gi 334183580  171 SHELHSGDELVF----GLNRSYAFIYQ 193
Cdd:cd22690    79 QSLLQDGDEIVLiwdkNNKEKIGFIFQ 105
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 791-901 5.16e-05

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: 45.52  E-value: 5.16e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  791 ILLFGPSGTGKTMLAKAVA---------TEAGANLINMS----MSRWFSEGEKYVKAVFslaSKISPSI--------IFL 849
Cdd:cd19508    55 VLLHGPPGTGKTSLCKALAqklsirlssRYRYGQLIEINshslFSKWFSESGKLVTKMF---QKIQELIddkdalvfVLI 131

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 334183580  850 DEVESM-LHRYRLKTKNE----------FIINWDGLRTNEKerVLVLAATNRPFDLDEAVIRR 901
Cdd:cd19508   132 DEVESLaAARSASSSGTEpsdairvvnaVLTQIDRIKRYHN--NVILLTSNLLEKIDVAFVDR 192
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 790-902 1.41e-04

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: 42.66  E-value: 1.41e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   790 GILLFGPSGTGKTMLAKAVAtEA--GANLINMSMSRWFSE------------GEKYVKAVFSLASKiSPSIIFLDEVEsM 855
Cdd:pfam07728    1 GVLLVGPPGTGKTELAERLA-AAlsNRPVFYVQLTRDTTEedlfgrrnidpgGASWVDGPLVRAAR-EGEIAVLDEIN-R 77

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 334183580   856 LHRYRLKTKN------EFIINWDGLRTNEK-ERVLVLAATNRP----FDLDEAVIRRL 902
Cdd:pfam07728   78 ANPDVLNSLLsllderRLLLPDGGELVKAApDGFRLIATMNPLdrglNELSPALRSRF 135
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 790-853 4.35e-04

Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and eukaryotic Heat shock protein 104 (Hsp104) are ATP-dependent molecular chaperones and essential proteins of the heat-shock response. ClpB/Hsp104 ATPases, in concert with the DnaK/Hsp70 chaperone system, disaggregate and reactivate aggregated proteins. This RecA-like_ClpB_Hsp104_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: 410907 [Multi-domain]  Cd Length: 178  Bit Score: 42.16  E-value: 4.35e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  790 GILLF-GPSGTGKTMLAKAVATE---AGANLINMSMSRwFSEGE----------KYV--KAVFSLASKIS---PSIIFLD 850
Cdd:cd19499    42 GSFLFlGPTGVGKTELAKALAELlfgDEDNLIRIDMSE-YMEKHsvsrligappGYVgyTEGGQLTEAVRrkpYSVVLLD 120


                  ...
gi 334183580  851 EVE 853
Cdd:cd19499   121 EIE 123
AtoC COG2204
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ...
 791-1012 7.70e-04

DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];


Pssm-ID: 441806 [Multi-domain]  Cd Length: 418  Bit Score: 43.03  E-value: 7.70e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  791 ILLFGPSGTGKTMLAKA------------VATEAGA---NLInmsmsrwFSEGEKYVKAVFSLASKISP--------SII 847
Cdd:COG2204   157 VLITGESGTGKELVARAihrlspradgpfVAVNCAAipeELL-------ESELFGHEKGAFTGAVARRIgkfeladgGTL 229

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  848 FLDEVESMlhRYRLKTK-----NEFIINWDGLRTNEKERVLVLAATNRpfDLDEAVIRR-----LPHRLMV---GLPDAR 914
Cdd:COG2204   230 FLDEIGEM--PLALQAKllrvlQEREFERVGGNKPIPVDVRVIAATNR--DLEELVEEGrfredLYYRLNVfpiELPPLR 305

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  915 SRS--------KILKVILSKEDLSPDFDIDEVASMTNgYS--GN--DLKNLCvtaarrriieivekeksERDAAVAEGRV 982
Cdd:COG2204   306 ERRedipllarHFLARFAAELGKPVKLSPEALEALLA-YDwpGNvrELENVI-----------------ERAVILADGEV 367

                         250       260       270
                  ....*....|....*....|....*....|
gi 334183580  983 PPAGSGGSDLRVLKMEDFRNALELVSMSIS 1012
Cdd:COG2204   368 ITAEDLPEALEEVERELIERALEETGGNVS 397
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
791-816 1.14e-03

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 42.43  E-value: 1.14e-03
                          10        20
                  ....*....|....*....|....*.
gi 334183580  791 ILLFGPSGTGKTMLAKAVATEAGANL 816
Cdd:PRK00080   54 VLLYGPPGLGKTTLANIIANEMGVNI 79
FHA_Ki67 cd22673
forkhead associated (FHA) domain found in proliferation marker protein Ki-67 and similar ...
 110-190 1.33e-03

forkhead associated (FHA) domain found in proliferation marker protein Ki-67 and similar proteins; Ki-67, also called antigen identified by monoclonal antibody Ki-67, antigen KI-67, or antigen Ki67, acts as a biological surfactant to disperse mitotic chromosomes. It is required to maintain individual mitotic chromosomes dispersed in the cytoplasm following nuclear envelope disassembly. Ki-67 binds DNA with a preference for supercoiled DNA and AT-rich DNA. It may also play a role in chromatin organization. Ki-67 contains an FHA domain at its N-terminus. The FHA domain is a small phosphopeptide recognition module.


Pssm-ID: 438725 [Multi-domain]  Cd Length: 95  Bit Score: 39.12  E-value: 1.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  110 ESSCTFGSCLTSDFTLHDRNLGAFLCKITriqRNGNVVAVLDITGTGGPLRINKAFVikNVSHELHSGDELVFGlNRSYA 189
Cdd:cd22673    20 KKSCTFGRDLSCDIRIQLPGVSREHCRIE---VDENGKAYLENLSTTNPTLVNGKAI--EKSAELKDGDVITIG-GRSFR 93


                  .
gi 334183580  190 F 190
Cdd:cd22673    94 F 94
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
790-812 1.63e-03

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 41.30  E-value: 1.63e-03
                          10        20
                  ....*....|....*....|...
gi 334183580  790 GILLFGPSGTGKTMLAKAVATEA 812
Cdd:COG1484   101 NLILLGPPGTGKTHLAIALGHEA 123
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 789-853 1.74e-03

ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU 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: 410906 [Multi-domain]  Cd Length: 183  Bit Score: 40.44  E-value: 1.74e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 334183580  789 NGILLFGPSGTGKTMLAKAVATEAGANLINMSMSRWFSEGekYV-KAVFSLASKISPSIIFLDEVE 853
Cdd:cd19498    47 KNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVG--YVgRDVESIIRDLVEGIVFIDEID 110
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 790-901 1.80e-03

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: 40.03  E-value: 1.80e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  790 GILLFGPSGTGKTMLAKAVATEAGANLINMSMSRwFSEGEKYVKAVFSLASKisPSIIFLDEVESML--HRYRLKTKNEF 867
Cdd:cd19510    25 GYLLYGPPGTGKSSFIAALAGELDYDICDLNLSE-VVLTDDRLNHLLNTAPK--QSIILLEDIDAAFesREHNKKNPSAY 101

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 334183580  868 ----------IINW-DGLrTNEKERVLVLaATNRPFDLDEAVIRR 901
Cdd:cd19510   102 gglsrvtfsgLLNAlDGV-ASSEERIVFM-TTNHIERLDPALIRP 144
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 791-868 2.25e-03

RecA-like_NTPases; RecA-like NTPases. This superfamily 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: 410865 [Multi-domain]  Cd Length: 119  Bit Score: 39.02  E-value: 2.25e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 334183580  791 ILLFGPSGTGKTMLAKAVATEAGANLINMSmsrWFSEGEKYVKAVFSLASKISPSIIFLDEVESMLHRYRLKTKNEFI 868
Cdd:cd01120     1 ILITGPPGSGKTTLLLQFAEQALLSDEPVI---FISFLDTILEAIEDLIEEKKLDIIIIDSLSSLARASQGDRSSELL 75
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 787-906 2.40e-03

ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; however, its function remains unclear. The gene encoding YCF2 is the largest known plastid gene in angiosperms and has been used to predict phylogenetic relationships. 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: 410913 [Multi-domain]  Cd Length: 161  Bit Score: 39.67  E-value: 2.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580  787 PCNGILLFGPSGTGKTMLAKAVATEAGANLINMSMSRWFS------------------EGEKYVKAVFSLASKISPSIIF 848
Cdd:cd19505    11 PSKGILLIGSIETGRSYLIKSLAANSYVPLIRISLNKLLYnkpdfgnddwidgmlilkESLHRLNLQFELAKAMSPCIIW 90

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 334183580  849 LD---EVESMLHRYRLKTKNEF----IINW--DGLRTNEKERVLVLAATNRPFDLDEAVIRrlPHRL 906
Cdd:cd19505    91 IPnihELNVNRSTQNLEEDPKLllglLLNYlsRDFEKSSTRNILVIASTHIPQKVDPALIA--PNRL 155
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
790-813 3.38e-03

DNA helicase TIP49, TBP-interacting protein [Transcription];


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 41.11  E-value: 3.38e-03
                          10        20
                  ....*....|....*....|....
gi 334183580  790 GILLFGPSGTGKTMLAKAVATEAG 813
Cdd:COG1224    66 GILIVGPPGTGKTALAVAIARELG 89
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 791-812 3.39e-03

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 40.15  E-value: 3.39e-03
                          10        20
                  ....*....|....*....|..
gi 334183580  791 ILLFGPSGTGKTMLAKAVATEA 812
Cdd:NF038214   93 VLLLGPPGTGKTHLAIALGYAA 114
ClpX COG1219
ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein ...
 791-813 5.49e-03

ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440832 [Multi-domain]  Cd Length: 409  Bit Score: 40.42  E-value: 5.49e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 334183580  791 ILLFGPSGTGKTMLAK----------AVA-----TEAG 813
Cdd:COG1219   112 ILLIGPTGSGKTLLAQtlarildvpfAIAdattlTEAG 149
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 791-816 7.03e-03

Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 38.25  E-value: 7.03e-03
                           10        20
                   ....*....|....*....|....*.
gi 334183580   791 ILLFGPSGTGKTMLAKAVATEAGANL 816
Cdd:pfam05496   36 VLLYGPPGLGKTTLANIIANEMGVNI 61
COG0645 COG0645
Predicted kinase, contains AAA domain [General function prediction only];
791-817 7.89e-03

Predicted kinase, contains AAA domain [General function prediction only];


Pssm-ID: 440410 [Multi-domain]  Cd Length: 164  Bit Score: 38.36  E-value: 7.89e-03
                          10        20
                  ....*....|....*....|....*..
gi 334183580  791 ILLFGPSGTGKTMLAKAVATEAGANLI 817
Cdd:COG0645     2 ILVCGLPGSGKSTLARALAERLGAVRL 28
FHA cd00060
forkhead associated (FHA) domain superfamily; Forkhead-associated (FHA) domains are small ...
 95-183 8.90e-03

forkhead associated (FHA) domain superfamily; Forkhead-associated (FHA) domains are small phosphopeptide recognition modules mostly found in eubacteria and eukaryotes. It is about 95-120 residues long that fold into an 11-stranded beta-sandwich. FHA domains can mediate the recognition of phosphorylated and non-phosphorylated substrates, as well as protein oligomerization. They specifically recognize threonine phosphorylation (pThr) accompanying activation of protein serine/threonine kinases. FHA domains show diverse ligand specificity. They may recognize the pTXXD motif, the pTXXI/L motif, and TQ clusters (singly and multiply phosphorylated). In eukaryotes, FHA superfamily members include forkhead-type transcription factors, as well as other signaling proteins, such as many regulatory proteins, kinases, phosphatases, motor proteins called kinesins, and metabolic enzymes. Many of them localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. FHA domains play important roles in human diseases, particularly in relation to DNA damage responses and cancers. In bacteria, FHA domain-containing proteins may participate in injection of viral proteins into host cells, transmembrane transporters, and cell division. FHA domain-containing proteins rarely include more than one copy of the domain. The only exception in eukaryotes is the checkpoint kinase Rad53 from Saccharomyces cerevisiae, which harbors two FHA domains (FHA1 and FHA2) flanking a central kinase domain. The two FHA domains recognize different phosphorylated targets and function independently from one another. In contrast, Mycobacterium tuberculosis ABC transporter Rv1747 contains two FHA domains but only one of them is essential for protein function.


Pssm-ID: 438714 [Multi-domain]  Cd Length: 92  Bit Score: 36.48  E-value: 8.90e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334183580   95 KLLSQSAKQQNLCLYESSCTFGSCLTSDFTLHDRNLGAFLCkitRIQRNGNVVAVLDITGTGGpLRINKAFVIKnvSHEL 174
Cdd:cd00060     3 IVLDGDGGGREFPLTKGVVTIGRSPDCDIVLDDPSVSRRHA---RIEVDGGGVYLEDLGSTNG-TFVNGKRITP--PVPL 76


                  ....*....
gi 334183580  175 HSGDELVFG 183
Cdd:cd00060    77 QDGDVIRLG 85
 
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.
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