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Conserved domains on  [gi|723802040|ref|NP_001073437|]
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uncharacterized protein LOC558115 [Danio rerio]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 531-690 9.95e-102

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: 311.38  E-value: 9.95e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 531 DVRQVVALYAILPLGSQAVHEKSPLVKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNGLQMMLHLVF 610
Cdd:cd19506    1 DVRQLLTLYGILPLGSQAVHEKAPLVKSLLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNGLQMMLHLVL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 611 KVARLMQPSVIWIGDAEKMFYRKVPKEEKELDPKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSADLKSLCKFYNKIILI 690
Cdd:cd19506   81 KVARQLQPSVIWIGDAEKTFYKKVPKTEKQLDPKRLKKDLPKILKSLKPEDRVLIVGTTSRPFEADLKSFCKVYNKIILI 160
IQ smart00015
Calmodulin-binding motif; Short calmodulin-binding motif containing conserved Ile and Gln ...
 207-223 7.77e-03

Calmodulin-binding motif; Short calmodulin-binding motif containing conserved Ile and Gln residues.


:

Pssm-ID: 197470 [Multi-domain]  Cd Length: 23  Bit Score: 34.61  E-value: 7.77e-03
                           10
                   ....*....|....*..
gi 723802040   207 QAAVCIQKVWRGFMQRK 223
Cdd:smart00015   4 RAAIIIQAAWRGYLARK 20
 
Name Accession Description Interval E-value
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 531-690 9.95e-102

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: 311.38  E-value: 9.95e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 531 DVRQVVALYAILPLGSQAVHEKSPLVKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNGLQMMLHLVF 610
Cdd:cd19506    1 DVRQLLTLYGILPLGSQAVHEKAPLVKSLLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNGLQMMLHLVL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 611 KVARLMQPSVIWIGDAEKMFYRKVPKEEKELDPKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSADLKSLCKFYNKIILI 690
Cdd:cd19506   81 KVARQLQPSVIWIGDAEKTFYKKVPKTEKQLDPKRLKKDLPKILKSLKPEDRVLIVGTTSRPFEADLKSFCKVYNKIILI 160
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 529-768 2.29e-15

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: 78.80  E-value: 2.29e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 529 LSDVRQVVALYAILPLGSQAVHEKS--PLVKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPG---RNglq 603
Cdd:COG0464  162 LEEVKEELRELVALPLKRPELREEYglPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGeteKN--- 238

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 604 mmLHLVFKVARLMQPSVIWIGDAEKMFyrkvPKEEKELDP--KRLkkdLPKILKSI-RGEDCVLIVGTTSDPHSAD--LK 678
Cdd:COG0464  239 --LREVFDKARGLAPCVLFIDEADALA----GKRGEVGDGvgRRV---VNTLLTEMeELRSDVVVIAATNRPDLLDpaLL 309

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 679 SlcKFyNKIILIPRPDYASRYVMWKELIKKNGgeVTGDLDLSSLAKISDGYTQGHMVQVVRSILteRRIQQFPKRPLTAS 758
Cdd:COG0464  310 R--RF-DEIIFFPLPDAEERLEIFRIHLRKRP--LDEDVDLEELAEATEGLSGADIRNVVRRAA--LQALRLGREPVTTE 382

                        250
                 ....*....|
gi 723802040 759 EFVSPLARID 768
Cdd:COG0464  383 DLLEALERED 392
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 559-692 7.70e-12

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


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 63.38  E-value: 7.70e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  559 ILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMFyRKVPKEE 638
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGES--EKRLRELFEAAKKLAPCVIFIDEIDALA-GSRGSGG 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 723802040  639 KELDPKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSAD--LKSLCkfyNKIILIPR 692
Cdd:pfam00004  78 DSESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDpaLLGRF---DRIIEFPL 130
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 529-779 4.06e-10

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: 63.39  E-value: 4.06e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  529 LSDVRQVVALYAILPLGSQAVHEKSPLV--KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMML 606
Cdd:TIGR01243 458 LEEVKQELREAVEWPLKHPEIFEKMGIRppKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGES--EKAI 535

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  607 HLVFKVARLMQPSVIWIGDAEKMfyrkVPKEEKELDPKRLKKDLPKILKSIRG---EDCVLIVGTTSDPHSADLKSL-CK 682
Cdd:TIGR01243 536 REIFRKARQAAPAIIFFDEIDAI----APARGARFDTSVTDRIVNQLLTEMDGiqeLSNVVVIAATNRPDILDPALLrPG 611

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  683 FYNKIILIPRPDYASRYVMWKelIKKNGGEVTGDLDLSSLAKISDGYTQGHMVQVVR--SILTERRIQQFPKRPLTASEF 760
Cdd:TIGR01243 612 RFDRLILVPPPDEEARKEIFK--IHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCReaAMAALRESIGSPAKEKLEVGE 689

                         250
                  ....*....|....*....
gi 723802040  761 VSPLARIDPVFQEEEEALK 779
Cdd:TIGR01243 690 EEFLKDLKVEMRHFLEALK 708
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 557-676 6.26e-05

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: 43.90  E-value: 6.26e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040   557 KTILLVGPSGVGKKMLVHAICQE-----------TGANLFDLSPLNVAKKYPGRNGLQ----MMLHLVFKVARLMQPSVI 621
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARElgppgggviyiDGEDILEEVLDQLLLIIVGGKKASgsgeLRLRLALALARKLKPDVL 82

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 723802040   622 WIGDAEKMFYRKVPKEEKELDPKRLKKDLPKILKsirgedcVLIVGTTSDPHSAD 676
Cdd:smart00382  83 ILDEITSLLDAEQEALLLLLEELRLLLLLKSEKN-------LTVILTTNDEKDLG 130
IQ smart00015
Calmodulin-binding motif; Short calmodulin-binding motif containing conserved Ile and Gln ...
 207-223 7.77e-03

Calmodulin-binding motif; Short calmodulin-binding motif containing conserved Ile and Gln residues.


Pssm-ID: 197470 [Multi-domain]  Cd Length: 23  Bit Score: 34.61  E-value: 7.77e-03
                           10
                   ....*....|....*..
gi 723802040   207 QAAVCIQKVWRGFMQRK 223
Cdd:smart00015   4 RAAIIIQAAWRGYLARK 20
 
Name Accession Description Interval E-value
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 531-690 9.95e-102

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: 311.38  E-value: 9.95e-102
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 531 DVRQVVALYAILPLGSQAVHEKSPLVKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNGLQMMLHLVF 610
Cdd:cd19506    1 DVRQLLTLYGILPLGSQAVHEKAPLVKSLLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNGLQMMLHLVL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 611 KVARLMQPSVIWIGDAEKMFYRKVPKEEKELDPKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSADLKSLCKFYNKIILI 690
Cdd:cd19506   81 KVARQLQPSVIWIGDAEKTFYKKVPKTEKQLDPKRLKKDLPKILKSLKPEDRVLIVGTTSRPFEADLKSFCKVYNKIILI 160
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 531-676 2.15e-21

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: 91.58  E-value: 2.15e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 531 DVRQVVALYAILPLGSQAvheKSPLVKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGrnGLQMMLHLVF 610
Cdd:cd19481    4 SLREAVEAPRRGSRLRRY---GLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVG--ESEKNLRKIF 78

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 723802040 611 KVARLMQPSVIWIGDAEKMFYRKVPkeekELDPKRLKKDLPKILK---SIRGEDCVLIVGTTSDPHSAD 676
Cdd:cd19481   79 ERARRLAPCILFIDEIDAIGRKRDS----SGESGELRRVLNQLLTeldGVNSRSKVLVIAATNRPDLLD 143
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 529-768 2.29e-15

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: 78.80  E-value: 2.29e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 529 LSDVRQVVALYAILPLGSQAVHEKS--PLVKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPG---RNglq 603
Cdd:COG0464  162 LEEVKEELRELVALPLKRPELREEYglPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGeteKN--- 238

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 604 mmLHLVFKVARLMQPSVIWIGDAEKMFyrkvPKEEKELDP--KRLkkdLPKILKSI-RGEDCVLIVGTTSDPHSAD--LK 678
Cdd:COG0464  239 --LREVFDKARGLAPCVLFIDEADALA----GKRGEVGDGvgRRV---VNTLLTEMeELRSDVVVIAATNRPDLLDpaLL 309

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 679 SlcKFyNKIILIPRPDYASRYVMWKELIKKNGgeVTGDLDLSSLAKISDGYTQGHMVQVVRSILteRRIQQFPKRPLTAS 758
Cdd:COG0464  310 R--RF-DEIIFFPLPDAEERLEIFRIHLRKRP--LDEDVDLEELAEATEGLSGADIRNVVRRAA--LQALRLGREPVTTE 382

                        250
                 ....*....|
gi 723802040 759 EFVSPLARID 768
Cdd:COG0464  383 DLLEALERED 392
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 557-730 3.98e-14

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 74.27  E-value: 3.98e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 557 KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPG---RNglqmmLHLVFKVARLMQPSVIWIgDaekmfyrk 633
Cdd:COG1222  113 KGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGegaRN-----VREVFELAREKAPSIIFI-D-------- 178

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 634 vpkeekELD---PKR--------LKKDLPKILKSIRG---EDCVLIVGTTSDPHSAD--LKSLCKFyNKIILIPRPDYAS 697
Cdd:COG1222  179 ------EIDaiaARRtddgtsgeVQRTVNQLLAELDGfesRGDVLIIAATNRPDLLDpaLLRPGRF-DRVIEVPLPDEEA 251

                        170       180       190
                 ....*....|....*....|....*....|...
gi 723802040 698 RYVMWKELIKKNggEVTGDLDLSSLAKISDGYT 730
Cdd:COG1222  252 REEILKIHLRDM--PLADDVDLDKLAKLTEGFS 282
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 555-690 1.46e-13

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: 69.14  E-value: 1.46e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 555 LVKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMfyrkV 634
Cdd:cd19523   32 LPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEG--EKILQASFLAARCRQPSVLFISDLDAL----L 105

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 723802040 635 PKEEKELDP-KRLKKDLPKILKSI--RGEDCVLIVGTTSDPHSADlKSLCKFYNKIILI 690
Cdd:cd19523  106 SSQDDEASPvGRLQVELLAQLDGVlgSGEDGVLVVCTTSKPEEID-ESLRRYFSKRLLV 163
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 559-692 7.70e-12

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


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 63.38  E-value: 7.70e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  559 ILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMFyRKVPKEE 638
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGES--EKRLRELFEAAKKLAPCVIFIDEIDALA-GSRGSGG 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 723802040  639 KELDPKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSAD--LKSLCkfyNKIILIPR 692
Cdd:pfam00004  78 DSESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDpaLLGRF---DRIIEFPL 130
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 541-676 9.68e-12

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: 63.85  E-value: 9.68e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 541 ILPLGSQAVHEKSPL--VKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQP 618
Cdd:cd19503   17 ELPLKYPELFRALGLkpPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGES--EKNLREIFEEARSHAP 94

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 723802040 619 SVIWIGDAEKMfyrkVPKEEK---ELDpKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSAD 676
Cdd:cd19503   95 SIIFIDEIDAL----APKREEdqrEVE-RRVVAQLLTLMDGMSSRGKVVVIAATNRPDAID 150
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 557-687 2.06e-11

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: 62.94  E-value: 2.06e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 557 KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMFYRKVPK 636
Cdd:cd19524   34 RGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEG--EKLVRALFAVARELQPSIIFIDEVDSLLSERSEG 111

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 723802040 637 EEKEldPKRLKKDLPKILKSIR--GEDCVLIVGTTSDPHSADLKSLCKFYNKI 687
Cdd:cd19524  112 EHEA--SRRLKTEFLIEFDGVQsnGDDRVLVMGATNRPQELDDAVLRRFTKRV 162
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 557-676 2.45e-11

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: 63.47  E-value: 2.45e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 557 KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMFYRKVPK 636
Cdd:cd19525   56 KGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEG--EKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEG 133

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 723802040 637 EEKEldPKRLKKDLPKILKSIR--GEDCVLIVGTTSDPHSAD 676
Cdd:cd19525  134 EHES--SRRIKTEFLVQLDGATtsSEDRILVVGATNRPQEID 173
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 555-687 2.53e-11

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: 62.75  E-value: 2.53e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 555 LVKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEkMFYRKV 634
Cdd:cd19509   31 PPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGES--EKIVRALFALARELQPSIIFIDEID-SLLSER 107

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 723802040 635 PKEEKELDpKRLKKDLPKILKSIRG--EDCVLIVGTTSDPHSADLKSLCKFYNKI 687
Cdd:cd19509  108 GSGEHEAS-RRVKTEFLVQMDGVLNkpEDRVLVLGATNRPWELDEAFLRRFEKRI 161
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 541-676 2.77e-11

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: 62.83  E-value: 2.77e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 541 ILPLGSQAVHEKSPLV---KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQ 617
Cdd:cd19520   17 ILPLQRPELFDNSRLLqppKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGES--QKLVAAVFSLASKLQ 94

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 723802040 618 PSVIWIGDAEKMFYRKVPKEEKELdpKRLKKDLPKILKSIR--GEDCVLIVGTTSDPHSAD 676
Cdd:cd19520   95 PSIIFIDEIDSFLRQRSSTDHEAT--AMMKAEFMSLWDGLStdGNCRVIVMGATNRPQDLD 153
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 529-779 4.06e-10

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: 63.39  E-value: 4.06e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  529 LSDVRQVVALYAILPLGSQAVHEKSPLV--KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMML 606
Cdd:TIGR01243 458 LEEVKQELREAVEWPLKHPEIFEKMGIRppKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGES--EKAI 535

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  607 HLVFKVARLMQPSVIWIGDAEKMfyrkVPKEEKELDPKRLKKDLPKILKSIRG---EDCVLIVGTTSDPHSADLKSL-CK 682
Cdd:TIGR01243 536 REIFRKARQAAPAIIFFDEIDAI----APARGARFDTSVTDRIVNQLLTEMDGiqeLSNVVVIAATNRPDILDPALLrPG 611

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  683 FYNKIILIPRPDYASRYVMWKelIKKNGGEVTGDLDLSSLAKISDGYTQGHMVQVVR--SILTERRIQQFPKRPLTASEF 760
Cdd:TIGR01243 612 RFDRLILVPPPDEEARKEIFK--IHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCReaAMAALRESIGSPAKEKLEVGE 689

                         250
                  ....*....|....*....
gi 723802040  761 VSPLARIDPVFQEEEEALK 779
Cdd:TIGR01243 690 EEFLKDLKVEMRHFLEALK 708
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 557-774 1.09e-09

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: 62.23  E-value: 1.09e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  557 KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMfyrkVPK 636
Cdd:TIGR01243 213 KGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGES--EERLREIFKEAEENAPSIIFIDEIDAI----APK 286

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  637 EEK---ELDpKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSAD--LKSLCKFyNKIILIPRPDYASRyvmwKELIK--KN 709
Cdd:TIGR01243 287 REEvtgEVE-KRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDpaLRRPGRF-DREIVIRVPDKRAR----KEILKvhTR 360

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040  710 GGEVTGDLDLSSLAKISDGYTQGHM--------VQVVRSILTERRI----QQFPKRPL-----TASEFVSPLARIDPVFQ 772
Cdd:TIGR01243 361 NMPLAEDVDLDKLAEVTHGFVGADLaalakeaaMAALRRFIREGKInfeaEEIPAEVLkelkvTMKDFMEALKMVEPSAI 440


                  ..
gi 723802040  773 EE 774
Cdd:TIGR01243 441 RE 442
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 529-676 1.80e-08

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: 54.36  E-value: 1.80e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 529 LSDVRQVVALYAILPLGSQAVHEKSPlvKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHL 608
Cdd:cd19519    9 LAQIREMVELPLRHPELFKAIGIKPP--RGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGES--ESNLRK 84

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 723802040 609 VFKVARLMQPSVIWIGDAEKMfyrkVPKEEK---ELDpKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSAD 676
Cdd:cd19519   85 AFEEAEKNAPAIIFIDEIDAI----APKREKthgEVE-RRIVSQLLTLMDGLKQRAHVIVMAATNRPNSID 150
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 552-693 7.40e-08

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: 52.53  E-value: 7.40e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 552 KSPLVKTILLVGPSGVGKKMLVHAICQET---GANLFDLSPLNVAKKYPGRNGLQM-MLHLVFKVARLMQPSVIWIGDAE 627
Cdd:cd00009   15 ELPPPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELFGHfLVRLLFELAEKAKPGVLFIDEID 94

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 723802040 628 KMFYRKVPKEEKELDpkrlkkdlpKILKSIRGEDCVLIVGTTSDPHSADLKSLCKFYNKIILIPRP 693
Cdd:cd00009   95 SLSRGAQNALLRVLE---------TLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 557-687 8.12e-07

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: 49.86  E-value: 8.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 557 KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMFYrkvPK 636
Cdd:cd19521   41 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGES--EKLVKQLFAMARENKPSIIFIDEVDSLCG---TR 115

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 723802040 637 EEKELDP-KRLKKDLPKILKSI-RGEDCVLIVGTTSDPHSADLKSLCKFYNKI 687
Cdd:cd19521  116 GEGESEAsRRIKTELLVQMNGVgNDSQGVLVLGATNIPWQLDSAIRRRFEKRI 168
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 529-676 1.38e-05

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: 45.94  E-value: 1.38e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 529 LSDVRQVVALYAILPLGS----QAVHEKSPlvKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQM 604
Cdd:cd19530    1 LDHVREELTMSILRPIKRpdiyKALGIDLP--TGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGES--ER 76

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 723802040 605 MLHLVFKVARLMQPSVIWIGDAEKMfyrkVPKEEKELD--PKRLKKDLPKILKSIRGEDCVLIVGTTSDPHSAD 676
Cdd:cd19530   77 AVRQVFQRARASAPCVIFFDEVDAL----VPKRGDGGSwaSERVVNQLLTEMDGLEERSNVFVIAATNRPDIID 146
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 557-676 6.26e-05

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: 43.90  E-value: 6.26e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040   557 KTILLVGPSGVGKKMLVHAICQE-----------TGANLFDLSPLNVAKKYPGRNGLQ----MMLHLVFKVARLMQPSVI 621
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARElgppgggviyiDGEDILEEVLDQLLLIIVGGKKASgsgeLRLRLALALARKLKPDVL 82

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 723802040   622 WIGDAEKMFYRKVPKEEKELDPKRLKKDLPKILKsirgedcVLIVGTTSDPHSAD 676
Cdd:smart00382  83 ILDEITSLLDAEQEALLLLLEELRLLLLLKSEKN-------LTVILTTNDEKDLG 130
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 529-623 8.57e-05

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: 43.87  E-value: 8.57e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 529 LSDVRQVVALYAILPLGSQAVHEKSPlvKTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNGlqMMLHL 608
Cdd:cd19502   12 IREIREVVELPLKHPELFEELGIEPP--KGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGEGA--RLVRE 87

                         90
                 ....*....|....*
gi 723802040 609 VFKVARLMQPSVIWI 623
Cdd:cd19502   88 LFEMAREKAPSIIFI 102
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 557-676 2.91e-04

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: 42.10  E-value: 2.91e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 557 KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMfyrkVPK 636
Cdd:cd19529   28 KGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGES--EKAIREIFRKARQVAPCVIFFDEIDSI----APR 101

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 723802040 637 EEKELDPKRLKKDLPKILKSIRG---EDCVLIVGTTSDPHSAD 676
Cdd:cd19529  102 RGTTGDSGVTERVVNQLLTELDGleeMNGVVVIAATNRPDIID 144
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 557-621 5.90e-04

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: 41.11  E-value: 5.90e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 723802040 557 KTILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVI 621
Cdd:cd19511   28 KGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGES--ERAVREIFQKARQAAPCII 90
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 559-689 1.12e-03

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: 40.47  E-value: 1.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 559 ILLVGPSGVGKKMLVHAICQETGANLFDLSPLNVAKKYPGRNglQMMLHLVFKVARLMQPSVIWIGDAEKMfyrkVPKEE 638
Cdd:cd19518   37 VLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGES--EEKIRELFDQAISNAPCIVFIDEIDAI----TPKRE 110

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 639 ---KELDpKRLKKDLPKILKSIRGEDC----VLIVGTTSDPHSAD--LKSLCKFYNKIIL 689
Cdd:cd19518  111 saqREME-RRIVSQLLTCMDELNNEKTaggpVLVIGATNRPDSLDpaLRRAGRFDREICL 169
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 545-630 6.63e-03

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: 38.12  E-value: 6.63e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 723802040 545 GSQAVHEKSPLVKTILLVGPSGVGKKMLVHAICQETGANLFDlspLNVAKKYPGRNG-LQMMLHLVFKVARLMQPSVIWI 623
Cdd:cd19507   20 SKQASAYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLR---LDMGRLFGGLVGeSESRLRQMIQTAEAIAPCVLWI 96


                 ....*..
gi 723802040 624 GDAEKMF 630
Cdd:cd19507   97 DEIEKGF 103
IQ smart00015
Calmodulin-binding motif; Short calmodulin-binding motif containing conserved Ile and Gln ...
 207-223 7.77e-03

Calmodulin-binding motif; Short calmodulin-binding motif containing conserved Ile and Gln residues.


Pssm-ID: 197470 [Multi-domain]  Cd Length: 23  Bit Score: 34.61  E-value: 7.77e-03
                           10
                   ....*....|....*..
gi 723802040   207 QAAVCIQKVWRGFMQRK 223
Cdd:smart00015   4 RAAIIIQAAWRGYLARK 20
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 557-623 8.48e-03

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: 37.98  E-value: 8.48e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 723802040 557 KTILLVGPSGVGKKMLVHAICQETGANLFDLSplnvakkypGRNGLQMMLHL-------VFKVARLMQPSVIWI 623
Cdd:cd19501   38 KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSIS---------GSDFVEMFVGVgasrvrdLFEQAKKNAPCIVFI 102
 
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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