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Conserved domains on  [gi|21313044|ref|NP_081997|]
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katanin p60 ATPase-containing subunit A-like 2 isoform 4 [Mus musculus]

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 ...
 257-408 5.34e-77

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 cd19509:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 163  Bit Score: 235.71  E-value: 5.34e-77
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 257 IIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLV 336
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21313044 337 RVLFELARYHAPSTIFLDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDGL-ARSEDLVFVLAASNLPWEGD 408
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSERG---SGEHEASRRVKTEFLVQMDGVlNKPEDRVLVLGATNRPWELD 150
LisH smart00667
Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, ...
 25-55 4.51e-05

Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.


:

Pssm-ID: 128913  Cd Length: 34  Bit Score: 40.11  E-value: 4.51e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 21313044     25 RRKNLLILILHYLTQEGYMDAAKALEEETKL 55
Cdd:smart00667   2 SRSELNRLILEYLLRNGYEETAETLQKESGL 32
 
Name Accession Description Interval E-value
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 257-408 5.34e-77

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: 235.71  E-value: 5.34e-77
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 257 IIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLV 336
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21313044 337 RVLFELARYHAPSTIFLDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDGL-ARSEDLVFVLAASNLPWEGD 408
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSERG---SGEHEASRRVKTEFLVQMDGVlNKPEDRVLVLGATNRPWELD 150
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 213-405 8.89e-56

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 186.75  E-value: 8.89e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 213 NPDPSERLLKPLSAFIGMNSEMRELAAVVSRDIY----LHNPNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSP 287
Cdd:COG1222  32 LLQPVKALELLEEAPALLLNDANLTQKRLGTPRGtavpAESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYgIEP 111

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 288 WKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRG-MV 366
Cdd:COG1222 112 PKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTdDG 191

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 21313044 367 PGGEHEgslRMKTELLVQMDGLARSEDlVFVLAASNLPW 405
Cdd:COG1222 192 TSGEVQ---RTVNQLLAELDGFESRGD-VLIIAATNRPD 226
cell_div_CdvC NF041006
cell division protein CdvC;
250-408 1.50e-42

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 152.97  E-value: 1.50e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  250 PNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTgiLSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWR 329
Cdd:NF041006  98 PKVTFSDIVGLEDVKEALKEAIVYPSKRPDLFP--LGWPRGILLYGPPGCGKTMLAAAVANEIDSEFIHVDAASIMSKWL 175

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  330 GDSEKLVRVLFELARYHA-----PSTIFLDELESVMSqrgmVPGGEHEGSLRMKTELLVQMDGLA-RSEDL-VFVLAASN 402
Cdd:NF041006 176 GEAEKNVAKIFKKAREKSkeegkPAIIFIDEIDALLG----VYSSEVGGEVRVRNQFLKEMDGLQdKSENYhVYVIGATN 251


                 ....*.
gi 21313044  403 LPWEGD 408
Cdd:NF041006 252 KPWRLD 257
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 243-404 1.88e-41

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: 155.84  E-value: 1.88e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   243 RDIYLHNPNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISA 321
Cdd:TIGR01243 441 REVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMgIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRG 520

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   322 STIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGgeHEGSLRMKTELLVQMDGLARSEDLVfVLAAS 401
Cdd:TIGR01243 521 PEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFD--TSVTDRIVNQLLTEMDGIQELSNVV-VIAAT 597


                  ...
gi 21313044   402 NLP 404
Cdd:TIGR01243 598 NRP 600
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 291-406 3.90e-41

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


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 141.96  E-value: 3.90e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   291 LLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGmvpGGE 370
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRG---SGG 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 21313044   371 HEGSLRMKTELLVQMDGLARSEDLVFVLAASNLPWE 406
Cdd:pfam00004  78 DSESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDK 113
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 250-402 6.69e-41

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 149.21  E-value: 6.69e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  250 PNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFT--GIlSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSK 327
Cdd:PRK03992 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEevGI-EPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQK 204

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21313044  328 WRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQR-GMVPGGEHEGSlRMKTELLVQMDGLARSEDlVFVLAASN 402
Cdd:PRK03992 205 FIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRtDSGTSGDREVQ-RTLMQLLAEMDGFDPRGN-VKIIAATN 278
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 287-409 1.09e-12

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


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 65.09  E-value: 1.09e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044    287 PWKGLLLYGPPGTGKTLLAKAVATECKTT---FFNISASTI--------------VSKWRGDSEKLVRVLFELARYHAPS 349
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDIleevldqllliivgGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044    350 TIFLDELESVMSQRGMVpggehegsLRMKTELLVQMDGLARSEDLVFVLAASNLPWEGDA 409
Cdd:smart00382  81 VLILDEITSLLDAEQEA--------LLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPA 132
LisH smart00667
Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, ...
 25-55 4.51e-05

Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.


Pssm-ID: 128913  Cd Length: 34  Bit Score: 40.11  E-value: 4.51e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 21313044     25 RRKNLLILILHYLTQEGYMDAAKALEEETKL 55
Cdd:smart00667   2 SRSELNRLILEYLLRNGYEETAETLQKESGL 32
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 291-375 6.84e-05

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: 44.00  E-value: 6.84e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  291 LLLYGPPGTGKTLLAKAVATEC-----KTTFFniSASTIVSKWRG--DSEKLVRVLFELARYHApstIFLDELesvmsqr 363
Cdd:NF038214  93 VLLLGPPGTGKTHLAIALGYAAcrqgyRVRFT--TAADLVEQLAQarADGRLGRLLRRLARYDL---LIIDEL------- 160

                         90
                 ....*....|..
gi 21313044  364 GMVPGGEHEGSL 375
Cdd:NF038214 161 GYLPFSREGANL 172
LisH pfam08513
LisH; The LisH (lis homology) domain mediates protein dimerization and tetramerization. The ...
 28-52 1.13e-04

LisH; The LisH (lis homology) domain mediates protein dimerization and tetramerization. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex.


Pssm-ID: 462501  Cd Length: 25  Bit Score: 38.84  E-value: 1.13e-04
                          10        20
                  ....*....|....*....|....*
gi 21313044    28 NLLILILHYLTQEGYMDAAKALEEE 52
Cdd:pfam08513   1 ELNRLIYDYLVKEGYEETAEAFEKE 25
 
Name Accession Description Interval E-value
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 257-408 5.34e-77

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: 235.71  E-value: 5.34e-77
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 257 IIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLV 336
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21313044 337 RVLFELARYHAPSTIFLDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDGL-ARSEDLVFVLAASNLPWEGD 408
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSERG---SGEHEASRRVKTEFLVQMDGVlNKPEDRVLVLGATNRPWELD 150
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 256-408 2.75e-74

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: 229.10  E-value: 2.75e-74
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKL 335
Cdd:cd19522   1 DIADLEEAKKLLEEAVVLPMWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESEKL 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 21313044 336 VRVLFELARYHAPSTIFLDELESVMSQRGMvpGGEHEGSLRMKTELLVQMDGLARSED------LVFVLAASNLPWEGD 408
Cdd:cd19522  81 VRLLFEMARFYAPTTIFIDEIDSICSRRGT--SEEHEASRRVKSELLVQMDGVGGASEnddpskMVMVLAATNFPWDID 157
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 250-409 1.88e-73

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: 227.05  E-value: 1.88e-73
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 250 PNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWR 329
Cdd:cd19521   2 PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWM 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 330 GDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDGLARSEDLVFVLAASNLPWEGDA 409
Cdd:cd19521  82 GESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRG---EGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDS 158
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 236-408 1.84e-64

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: 204.45  E-value: 1.84e-64
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 236 ELAAVVSRDIYLHNPNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTT 315
Cdd:cd19525   3 KMIELIMSEIMDHGPPINWADIAGLEFAKKTIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGAT 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 316 FFNISASTIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDGL-ARSEDL 394
Cdd:cd19525  83 FFSISASSLTSKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRG---EGEHESSRRIKTEFLVQLDGAtTSSEDR 159

                       170
                ....*....|....
gi 21313044 395 VFVLAASNLPWEGD 408
Cdd:cd19525 160 ILVVGATNRPQEID 173
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 256-408 1.44e-57

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: 185.82  E-value: 1.44e-57
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKL 335
Cdd:cd19524   1 DIAGQDLAKQALQEMVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKL 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 21313044 336 VRVLFELARYHAPSTIFLDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDGL-ARSEDLVFVLAASNLPWEGD 408
Cdd:cd19524  81 VRALFAVARELQPSIIFIDEVDSLLSERS---EGEHEASRRLKTEFLIEFDGVqSNGDDRVLVMGATNRPQELD 151
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 213-405 8.89e-56

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 186.75  E-value: 8.89e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 213 NPDPSERLLKPLSAFIGMNSEMRELAAVVSRDIY----LHNPNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSP 287
Cdd:COG1222  32 LLQPVKALELLEEAPALLLNDANLTQKRLGTPRGtavpAESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYgIEP 111

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 288 WKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRG-MV 366
Cdd:COG1222 112 PKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTdDG 191

                       170       180       190
                ....*....|....*....|....*....|....*....
gi 21313044 367 PGGEHEgslRMKTELLVQMDGLARSEDlVFVLAASNLPW 405
Cdd:COG1222 192 TSGEVQ---RTVNQLLAELDGFESRGD-VLIIAATNRPD 226
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 256-409 7.19e-49

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: 163.36  E-value: 7.19e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLVKEAVVYPIRYPQLF--TGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSE 333
Cdd:cd19520   1 DIGGLDEVITELKELVILPLQRPELFdnSRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 21313044 334 KLVRVLFELARYHAPSTIFLDELESVMSQRGMvpgGEHEGSLRMKTELLVQMDGLARS-EDLVFVLAASNLPWEGDA 409
Cdd:cd19520  81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQRSS---TDHEATAMMKAEFMSLWDGLSTDgNCRVIVMGATNRPQDLDE 154
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 256-404 1.20e-45

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: 155.14  E-value: 1.20e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEK 334
Cdd:cd19503   1 DIGGLDEQIASLKELIELPLKYPELFRALgLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEK 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 335 LVRVLFELARYHAPSTIFLDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDGLArSEDLVFVLAASNLP 404
Cdd:cd19503  81 NLREIFEEARSHAPSIIFIDEIDALAPKRE---EDQREVERRVVAQLLTLMDGMS-SRGKVVVIAATNRP 146
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 263-404 3.72e-44

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: 150.90  E-value: 3.72e-44
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 263 AKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFE 341
Cdd:cd19511   1 VKRELKEAVEWPLKHPDAFKRLgIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21313044 342 LARYHAPSTIFLDELESVMSQRGMVPGGehEGSLRMKTELLVQMDGLARSEDlVFVLAASNLP 404
Cdd:cd19511  81 KARQAAPCIIFFDEIDSLAPRRGQSDSS--GVTDRVVSQLLTELDGIESLKG-VVVIAATNRP 140
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 264-404 6.63e-43

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


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 147.66  E-value: 6.63e-43
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 264 KQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFEL 342
Cdd:cd19528   2 KRELQELVQYPVEHPDKFLKFgMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFDK 81

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 21313044 343 ARYHAPSTIFLDELESVMSQRGMVPGGEHEGSLRMKTELLVQMDGLARSEDlVFVLAASNLP 404
Cdd:cd19528  82 ARAAAPCVLFFDELDSIAKARGGNIGDAGGAADRVINQILTEMDGMNTKKN-VFIIGATNRP 142
cell_div_CdvC NF041006
cell division protein CdvC;
250-408 1.50e-42

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 152.97  E-value: 1.50e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  250 PNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTgiLSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWR 329
Cdd:NF041006  98 PKVTFSDIVGLEDVKEALKEAIVYPSKRPDLFP--LGWPRGILLYGPPGCGKTMLAAAVANEIDSEFIHVDAASIMSKWL 175

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  330 GDSEKLVRVLFELARYHA-----PSTIFLDELESVMSqrgmVPGGEHEGSLRMKTELLVQMDGLA-RSEDL-VFVLAASN 402
Cdd:NF041006 176 GEAEKNVAKIFKKAREKSkeegkPAIIFIDEIDALLG----VYSSEVGGEVRVRNQFLKEMDGLQdKSENYhVYVIGATN 251


                 ....*.
gi 21313044  403 LPWEGD 408
Cdd:NF041006 252 KPWRLD 257
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 252-404 5.54e-42

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: 145.45  E-value: 5.54e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 252 IKWNDIIGLDAAKQLVKEAVVYpIRYPQLFT--GILSPwKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWR 329
Cdd:cd19501   1 VTFKDVAGCEEAKEELKEVVEF-LKNPEKFTklGAKIP-KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFV 78

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 21313044 330 GDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGGEHEGSLRMKTELLVQMDGLARSEDlVFVLAASNLP 404
Cdd:cd19501  79 GVGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGAGLGGGHDEREQTLNQLLVEMDGFESNTG-VIVIAATNRP 152
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 254-404 7.22e-42

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: 145.17  E-value: 7.22e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 254 WNDIIGLDAAKQLVKEAVVYPIRYPQLFT--GILSPwKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGD 331
Cdd:cd19502   2 YEDIGGLDEQIREIREVVELPLKHPELFEelGIEPP-KGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGE 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 21313044 332 SEKLVRVLFELARYHAPSTIFLDELESVMSQR-GMVPGGEHEGSlRMKTELLVQMDGLARSEDlVFVLAASNLP 404
Cdd:cd19502  81 GARLVRELFEMAREKAPSIIFIDEIDAIGAKRfDSGTGGDREVQ-RTMLELLNQLDGFDPRGN-IKVIMATNRP 152
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 243-404 1.88e-41

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: 155.84  E-value: 1.88e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   243 RDIYLHNPNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISA 321
Cdd:TIGR01243 441 REVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMgIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRG 520

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   322 STIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGgeHEGSLRMKTELLVQMDGLARSEDLVfVLAAS 401
Cdd:TIGR01243 521 PEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFD--TSVTDRIVNQLLTEMDGIQELSNVV-VIAAT 597


                  ...
gi 21313044   402 NLP 404
Cdd:TIGR01243 598 NRP 600
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 263-404 3.22e-41

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: 143.02  E-value: 3.22e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 263 AKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFE 341
Cdd:cd19529   1 VKQELKEAVEWPLLKPEVFKRLgIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFR 80

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21313044 342 LARYHAPSTIFLDELESVMSQRGMvpGGEHEGSLRMKTELLVQMDGLARSEDLVfVLAASNLP 404
Cdd:cd19529  81 KARQVAPCVIFFDEIDSIAPRRGT--TGDSGVTERVVNQLLTELDGLEEMNGVV-VIAATNRP 140
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 291-406 3.90e-41

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


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 141.96  E-value: 3.90e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   291 LLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGmvpGGE 370
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRG---SGG 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 21313044   371 HEGSLRMKTELLVQMDGLARSEDLVFVLAASNLPWE 406
Cdd:pfam00004  78 DSESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDK 113
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 250-402 6.69e-41

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 149.21  E-value: 6.69e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  250 PNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFT--GIlSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSK 327
Cdd:PRK03992 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEevGI-EPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQK 204

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21313044  328 WRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQR-GMVPGGEHEGSlRMKTELLVQMDGLARSEDlVFVLAASN 402
Cdd:PRK03992 205 FIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRtDSGTSGDREVQ-RTLMQLLAEMDGFDPRGN-VKIIAATN 278
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 254-408 9.62e-41

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: 148.91  E-value: 9.62e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 254 WNDIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDS 332
Cdd:COG0464 156 LDDLGGLEEVKEELRELVALPLKRPELREEYgLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGET 235

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21313044 333 EKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGGEHEgslRMKTELLVQMDGLarsEDLVFVLAASNLPWEGD 408
Cdd:COG0464 236 EKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGR---RVVNTLLTEMEEL---RSDVVVIAATNRPDLLD 305
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 263-404 2.55e-40

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: 140.88  E-value: 2.55e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 263 AKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFEL 342
Cdd:cd19481   1 LKASLREAVEAPRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFER 80

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 21313044 343 ARYHAPSTIFLDELESVMSQRGmvPGGEHEGSLRMKTELLVQMDGLARSEDlVFVLAASNLP 404
Cdd:cd19481  81 ARRLAPCILFIDEIDAIGRKRD--SSGESGELRRVLNQLLTELDGVNSRSK-VLVIAATNRP 139
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 256-404 1.17e-37

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: 134.10  E-value: 1.17e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEK 334
Cdd:cd19519   1 DIGGCRKQLAQIREMVELPLRHPELFKAIgIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 335 LVRVLFELARYHAPSTIFLDELESVMSQRGMVPGgehEGSLRMKTELLVQMDGLARSEDlVFVLAASNLP 404
Cdd:cd19519  81 NLRKAFEEAEKNAPAIIFIDEIDAIAPKREKTHG---EVERRIVSQLLTLMDGLKQRAH-VIVMAATNRP 146
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 260-404 1.01e-36

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


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 131.46  E-value: 1.01e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 260 LDAAKQLVKEAVVYPIRYPQLFT--GILSPwKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVR 337
Cdd:cd19530   1 LDHVREELTMSILRPIKRPDIYKalGIDLP-TGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVR 79

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 21313044 338 VLFELARYHAPSTIFLDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDGL-ARSEdlVFVLAASNLP 404
Cdd:cd19530  80 QVFQRARASAPCVIFFDEVDALVPKRG---DGGSWASERVVNQLLTEMDGLeERSN--VFVIAATNRP 142
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 256-408 1.35e-36

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: 131.16  E-value: 1.35e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKL 335
Cdd:cd19523   1 DIAGLGALKAAIKEEVLWPLLRPDAFSGLLRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEKI 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21313044 336 VRVLFELARYHAPSTIFLDELESVMSQR--GMVPGGehegslRMKTELLVQMDG-LARSEDLVFVLAASNLPWEGD 408
Cdd:cd19523  81 LQASFLAARCRQPSVLFISDLDALLSSQddEASPVG------RLQVELLAQLDGvLGSGEDGVLVVCTTSKPEEID 150
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 264-404 1.10e-34

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: 126.09  E-value: 1.10e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 264 KQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFELA 343
Cdd:cd19527   2 KKEILDTIQLPLEHPELFSSGLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQKA 81

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 21313044 344 RYHAPSTIFLDELESVMSQRGMvpGGEHEGSL-RMKTELLVQMDGLARSEDLVFVLAASNLP 404
Cdd:cd19527  82 RDAKPCVIFFDELDSLAPSRGN--SGDSGGVMdRVVSQLLAELDGMSSSGQDVFVIGATNRP 141
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 250-402 1.25e-34

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 132.19  E-value: 1.25e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  250 PNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKW 328
Cdd:PTZ00454 140 PDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIgIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKY 219

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 21313044  329 RGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGGEHEGSLRMKTELLVQMDGLARSEDlVFVLAASN 402
Cdd:PTZ00454 220 LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTN-VKVIMATN 292
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 231-404 2.63e-34

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: 135.03  E-value: 2.63e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   231 NSEMRELAAVVSRDIYLHNPNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVA 309
Cdd:TIGR01243 154 ATEVEIREKPVREEIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLgIEPPKGVLLYGPPGTGKTLLAKAVA 233

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   310 TECKTTFFNISASTIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGgehEGSLRMKTELLVQMDGLa 389
Cdd:TIGR01243 234 NEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTG---EVEKRVVAQLLTLMDGL- 309

                         170
                  ....*....|....*
gi 21313044   390 RSEDLVFVLAASNLP 404
Cdd:TIGR01243 310 KGRGRVIVIGATNRP 324
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 250-402 3.27e-34

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 131.82  E-value: 3.27e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  250 PNIKWNDIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKW 328
Cdd:PTZ00361 178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIgIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKY 257

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 21313044  329 RGDSEKLVRVLFELARYHAPSTIFLDELESVMSQR-GMVPGGEHEGSlRMKTELLVQMDGLARSEDlVFVLAASN 402
Cdd:PTZ00361 258 LGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRyDATSGGEKEIQ-RTMLELLNQLDGFDSRGD-VKVIMATN 330
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 263-404 2.02e-31

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: 117.14  E-value: 2.02e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 263 AKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSEKLVRVLFE 341
Cdd:cd19526   1 VKKALEETIEWPSKYPKIFASSpLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21313044 342 LARYHAPSTIFLDELESVMSQRGMVPGGEHEgslRMKTELLVQMDGlARSEDLVFVLAASNLP 404
Cdd:cd19526  81 RAQSAKPCILFFDEFDSIAPKRGHDSTGVTD---RVVNQLLTQLDG-VEGLDGVYVLAATSRP 139
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 256-404 8.40e-31

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: 115.96  E-value: 8.40e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLVKEAVVYPIRYPQLF--TGILSPwKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSE 333
Cdd:cd19518   1 DIGGMDSTLKELCELLIHPILPPEYFqhLGVEPP-RGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESE 79

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 21313044 334 KLVRVLFELARYHAPSTIFLDELESVMSQRgmvPGGEHEGSLRMKTELLVQMDGL---ARSEDLVFVLAASNLP 404
Cdd:cd19518  80 EKIRELFDQAISNAPCIVFIDEIDAITPKR---ESAQREMERRIVSQLLTCMDELnneKTAGGPVLVIGATNRP 150
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
256-404 5.36e-30

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 122.07  E-value: 5.36e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  256 DIIGLDAAKQLVKEAVVY---PIRYPQLFTGIlsPwKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDS 332
Cdd:PRK10733 153 DVAGCDEAKEEVAELVEYlrePSRFQKLGGKI--P-KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVG 229

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 21313044  333 EKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGGEHEGSLRMKTELLVQMDGLARSEDLVfVLAASNLP 404
Cdd:PRK10733 230 ASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGII-VIAATNRP 300
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 256-404 8.28e-30

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: 113.37  E-value: 8.28e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLVKEAVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATEC-----KTTFFNISASTIVSKWR 329
Cdd:cd19517   1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFkITPPRGVLFHGPPGTGKTLMARALAAECskggqKVSFFMRKGADCLSKWV 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21313044 330 GDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGGEHEGslrMKTELLVQMDGL-ARSEdlVFVLAASNLP 404
Cdd:cd19517  81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHAS---IVSTLLALMDGLdNRGQ--VVVIGATNRP 151
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
249-404 1.06e-29

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 120.91  E-value: 1.06e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 249 NPNIKWNDIIGLDAAKQLVKEAVVYpIRYPQLFT--G--IlsPwKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTI 324
Cdd:COG0465 136 KPKVTFDDVAGVDEAKEELQEIVDF-LKDPEKFTrlGakI--P-KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDF 211

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 325 VskwrgdsEKLV-----RV--LFELARYHAPSTIFLDELESVMSQRGMVPGG---EHEGSLrmkTELLVQMDGLARSEDL 394
Cdd:COG0465 212 V-------EMFVgvgasRVrdLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGghdEREQTL---NQLLVEMDGFEGNEGV 281

                       170
                ....*....|
gi 21313044 395 VfVLAASNLP 404
Cdd:COG0465 282 I-VIAATNRP 290
ftsH CHL00176
cell division protein; Validated
 252-402 2.33e-29

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 120.15  E-value: 2.33e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  252 IKWNDIIGLDAAKQLVKEaVVYPIRYPQLFTGI-LSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRG 330
Cdd:CHL00176 180 ITFRDIAGIEEAKEEFEE-VVSFLKKPERFTAVgAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVG 258

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 21313044  331 DSEKLVRVLFELARYHAPSTIFLDELESVMSQRGMVPGGEHEGSLRMKTELLVQMDGLARSEDLVfVLAASN 402
Cdd:CHL00176 259 VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVI-VIAATN 329
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
254-404 1.78e-25

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 103.81  E-value: 1.78e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 254 WNDIIGLDAAKQLVKEAVVYPIRYPQLFTGILSPWKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDSE 333
Cdd:COG1223   1 LDDVVGQEEAKKKLKLIIKELRRRENLRKFGLWPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYLGETA 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21313044 334 KLVRVLFELARyHAPSTIFLDELESVMSQRGMvpggEHE-GSL-RMKTELLVQMDGLARSedlVFVLAASNLP 404
Cdd:COG1223  81 RNLRKLFDFAR-RAPCVIFFDEFDAIAKDRGD----QNDvGEVkRVVNALLQELDGLPSG---SVVIAATNHP 145
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 258-408 3.37e-21

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


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 89.13  E-value: 3.37e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 258 IGLDAAKQLVKEAVvypirypqlftgILSPWKGLLLYGPPGTGKTLLAKAVATEC---KTTFFNISASTIVSKWRGDSEK 334
Cdd:cd00009   1 VGQEEAIEALREAL------------ELPPPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELF 68

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 21313044 335 ---LVRVLFELARYHAPSTIFLDELESvmsqrgmVPGGEHEGSLRMktelLVQMDGLARSEDLVFVLAASNLPWEGD 408
Cdd:cd00009  69 ghfLVRLLFELAEKAKPGVLFIDEIDS-------LSRGAQNALLRV----LETLNDLRIDRENVRVIGATNRPLLGD 134
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 256-406 5.58e-14

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: 69.32  E-value: 5.58e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 256 DIIGLDAAKQLV--------KEAVVYPIRYPqlftgilspwKGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSK 327
Cdd:cd19507   1 DVGGLDNLKDWLkkrkaafsKQASAYGLPTP----------KGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGG 70

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 328 WRGDSEKLVRVLFELARYHAPSTIFLDELESVMSqrGMVPGGEHEGSLRMKTELLVQMdglARSEDLVFVLAASN----L 403
Cdd:cd19507  71 LVGESESRLRQMIQTAEAIAPCVLWIDEIEKGFS--NADSKGDSGTSSRVLGTFLTWL---QEKKKPVFVVATANnvqsL 145


                ...
gi 21313044 404 PWE 406
Cdd:cd19507 146 PPE 148
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 289-388 8.07e-14

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: 69.06  E-value: 8.07e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 289 KGLLLYGPPGTGKTLLAKAV-----ATECKTtffnISASTIVSKWRGDSEKLVRVLF-----ELARYHAPS---TIFLDE 355
Cdd:cd19504  36 KGILLYGPPGTGKTLMARQIgkmlnAREPKI----VNGPEILNKYVGESEANIRKLFadaeeEQRRLGANSglhIIIFDE 111

                        90       100       110
                ....*....|....*....|....*....|...
gi 21313044 356 LESVMSQRGMVPGGEHEGSlRMKTELLVQMDGL 388
Cdd:cd19504 112 IDAICKQRGSMAGSTGVHD-TVVNQLLSKIDGV 143
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 289-408 1.69e-13

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: 67.94  E-value: 1.69e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 289 KGLLLYGPPGTGKTLLAKAVATECKTTFFNISASTIVSKWRGDS--EKLVRVLFELARYHAPSTIFLDELESVMSQRgmV 366
Cdd:cd19506  27 KSLLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNglQMMLHLVLKVARQLQPSVIWIGDAEKTFYKK--V 104

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 21313044 367 PGGEHEGSLRMKTELLVQMDGLARSEDLVFVLAASNLPWEGD 408
Cdd:cd19506 105 PKTEKQLDPKRLKKDLPKILKSLKPEDRVLIVGTTSRPFEAD 146
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 291-403 2.61e-13

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: 68.24  E-value: 2.61e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 291 LLLYGPPGTGKTLLAKAVA---------TECKTTFFNISASTIVSKWRGDSEKLVRVLF----ELAR-YHAPSTIFLDEL 356
Cdd:cd19508  55 VLLHGPPGTGKTSLCKALAqklsirlssRYRYGQLIEINSHSLFSKWFSESGKLVTKMFqkiqELIDdKDALVFVLIDEV 134

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
gi 21313044 357 ESVMSQR-GMVPGGEHEGSLRMKTELLVQMDGLARSEDLVFVLAASNL 403
Cdd:cd19508 135 ESLAAARsASSSGTEPSDAIRVVNAVLTQIDRIKRYHNNVILLTSNLL 182
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 287-409 1.09e-12

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


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 65.09  E-value: 1.09e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044    287 PWKGLLLYGPPGTGKTLLAKAVATECKTT---FFNISASTI--------------VSKWRGDSEKLVRVLFELARYHAPS 349
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDIleevldqllliivgGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044    350 TIFLDELESVMSQRGMVpggehegsLRMKTELLVQMDGLARSEDLVFVLAASNLPWEGDA 409
Cdd:smart00382  81 VLILDEITSLLDAEQEA--------LLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPA 132
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 291-355 5.24e-08

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 54.68  E-value: 5.24e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 21313044 291 LLLYGPPGTGKTLLAKAVATECKTTFFNISASTivskwrgDSEKLVRVLFELA---RYHAPSTI-FLDE 355
Cdd:COG2256  52 MILWGPPGTGKTTLARLIANATDAEFVALSAVT-------SGVKDIREVIEEArerRAYGRRTIlFVDE 113
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 291-355 7.59e-08

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 53.94  E-value: 7.59e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 21313044  291 LLLYGPPGTGKTLLAKAVATECKTTFFNISASTivskwrgDSEKLVRVLFELARYHAPS---TI-FLDE 355
Cdd:PRK13342  39 MILWGPPGTGKTTLARIIAGATDAPFEALSAVT-------SGVKDLREVIEEARQRRSAgrrTIlFIDE 100
ycf46 CHL00195
Ycf46; Provisional
 249-406 8.60e-07

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 50.79  E-value: 8.60e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  249 NPNIKWNDIIGLDAAKQ--------LVKEAVVYPIRYPqlftgilspwKGLLLYGPPGTGKTLLAKAVATECKTTFFNIS 320
Cdd:CHL00195 222 SVNEKISDIGGLDNLKDwlkkrstsFSKQASNYGLPTP----------RGLLLVGIQGTGKSLTAKAIANDWQLPLLRLD 291

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  321 ASTIVSKWRGDSEKLVRVLFELARYHAPSTIFLDELESVMSQRGMvpGGEHEGSLRMKTELLVQmdgLARSEDLVFVLAA 400
Cdd:CHL00195 292 VGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSES--KGDSGTTNRVLATFITW---LSEKKSPVFVVAT 366

                        170
                 ....*....|
gi 21313044  401 SN----LPWE 406
Cdd:CHL00195 367 ANnidlLPLE 376
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
289-339 5.97e-06

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 48.04  E-value: 5.97e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 21313044 289 KGLLLYGPPGTGKTLLAKAVATEC--KTTFFNISASTIVSKWRGDSEKLVRVL 339
Cdd:COG1224  65 KGILIVGPPGTGKTALAVAIARELgeDTPFVAISGSEIYSAELKKTEFLMQAL 117
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 287-398 2.44e-05

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: 44.26  E-value: 2.44e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 287 PWK-GLLLYGPPGTGKTLLAKAVATECKTTFFNISASTivskwRGDSEKLVRVLfeLARYHAPSTIFLDELESVMSQRGM 365
Cdd:cd19510  21 PYRrGYLLYGPPGTGKSSFIAALAGELDYDICDLNLSE-----VVLTDDRLNHL--LNTAPKQSIILLEDIDAAFESREH 93

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 21313044 366 VPGGEHEGSLRMK---TELLVQMDGLARSEDLVFVL 398
Cdd:cd19510  94 NKKNPSAYGGLSRvtfSGLLNALDGVASSEERIVFM 129
LisH smart00667
Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, ...
 25-55 4.51e-05

Lissencephaly type-1-like homology motif; Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.


Pssm-ID: 128913  Cd Length: 34  Bit Score: 40.11  E-value: 4.51e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 21313044     25 RRKNLLILILHYLTQEGYMDAAKALEEETKL 55
Cdd:smart00667   2 SRSELNRLILEYLLRNGYEETAETLQKESGL 32
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 291-375 6.84e-05

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: 44.00  E-value: 6.84e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044  291 LLLYGPPGTGKTLLAKAVATEC-----KTTFFniSASTIVSKWRG--DSEKLVRVLFELARYHApstIFLDELesvmsqr 363
Cdd:NF038214  93 VLLLGPPGTGKTHLAIALGYAAcrqgyRVRFT--TAADLVEQLAQarADGRLGRLLRRLARYDL---LIIDEL------- 160

                         90
                 ....*....|..
gi 21313044  364 GMVPGGEHEGSL 375
Cdd:NF038214 161 GYLPFSREGANL 172
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 215-399 8.35e-05

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


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 44.84  E-value: 8.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   215 DPSERLLKPLSAFIGMNSEMRELAAVVSRD------------IYLHNPNIKWNDIIGLDAAKQ---LVKEAVVYPIRYPQ 279
Cdd:TIGR03922 224 DPSYRLVTTTAETIEARTDPWDPSSAPSRAefvdpaaaerkaKLLAEAEAELAEQIGLERVKRqvaALKSSTAMALARAE 303

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   280 LFTGILSPWKGLLLYGPPGTGKTLLAKAVATE-C------KTTFFNISASTIVSKWRGDSEKLVRVLFELAryhAPSTIF 352
Cdd:TIGR03922 304 RGLPVAQTSNHMLFAGPPGTGKTTIARVVAKIyCglgvlrKPLVREVSRADLIGQYIGESEAKTNEIIDSA---LGGVLF 380

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*..
gi 21313044   353 LDELESVMSQRGmvpGGEHEGSLRMKTELLVQMDglARSEDLVFVLA 399
Cdd:TIGR03922 381 LDEAYTLVETGY---GQKDPFGLEAIDTLLARME--NDRDRLVVIGA 422
LisH pfam08513
LisH; The LisH (lis homology) domain mediates protein dimerization and tetramerization. The ...
 28-52 1.13e-04

LisH; The LisH (lis homology) domain mediates protein dimerization and tetramerization. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex.


Pssm-ID: 462501  Cd Length: 25  Bit Score: 38.84  E-value: 1.13e-04
                          10        20
                  ....*....|....*....|....*
gi 21313044    28 NLLILILHYLTQEGYMDAAKALEEE 52
Cdd:pfam08513   1 ELNRLIYDYLVKEGYEETAEAFEKE 25
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
 289-326 1.71e-04

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


Pssm-ID: 399217 [Multi-domain]  Cd Length: 347  Bit Score: 43.45  E-value: 1.71e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 21313044   289 KGLLLYGPPGTGKTLLAKAVATEC--KTTFFNISASTIVS 326
Cdd:pfam06068  51 RAVLIAGPPGTGKTALAIAISKELgeDTPFTSISGSEVYS 90
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 286-309 2.17e-04

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


Pssm-ID: 410920 [Multi-domain]  Cd Length: 150  Bit Score: 41.36  E-value: 2.17e-04
                        10        20
                ....*....|....*....|....
gi 21313044 286 SPWKGLLLYGPPGTGKTLLAKAVA 309
Cdd:cd19512  20 GLYRNILFYGPPGTGKTLFAKKLA 43
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
291-315 2.56e-04

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 42.81  E-value: 2.56e-04
                         10        20
                 ....*....|....*....|....*....
gi 21313044  291 LLLYGPPGTGKTLLAKAVATE----CKTT 315
Cdd:PRK00080  54 VLLYGPPGLGKTTLANIIANEmgvnIRIT 82
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
 291-320 2.80e-04

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410908 [Multi-domain]  Cd Length: 182  Bit Score: 41.39  E-value: 2.80e-04
                        10        20        30
                ....*....|....*....|....*....|
gi 21313044 291 LLLYGPPGTGKTLLAKAVATECKTTFFNIS 320
Cdd:cd19500  40 LCLVGPPGVGKTSLGKSIARALGRKFVRIS 69
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 261-310 2.87e-04

MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 42.46  E-value: 2.87e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....
gi 21313044 261 DAAKQLVKEAVV---YPIRypQLFTGILSpwKG-LLLYGPPGTGKTLLAKAVAT 310
Cdd:COG0714   4 ARLRAEIGKVYVgqeELIE--LVLIALLA--GGhLLLEGVPGVGKTTLAKALAR 53
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 292-357 3.12e-04

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


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 41.03  E-value: 3.12e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 21313044   292 LLYGPPGTGKTLLAKAVA-----TECKTTFFNISA---STIVSKWRGDSEKLVRV-----LFELARYHAPSTIFLDELE 357
Cdd:pfam07724   7 LFLGPTGVGKTELAKALAellfgDERALIRIDMSEymeEHSVSRLIGAPPGYVGYeeggqLTEAVRRKPYSIVLIDEIE 85
PRK08116 PRK08116
hypothetical protein; Validated
 290-311 3.81e-04

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 41.93  E-value: 3.81e-04
                         10        20
                 ....*....|....*....|..
gi 21313044  290 GLLLYGPPGTGKTLLAKAVATE 311
Cdd:PRK08116 116 GLLLWGSVGTGKTYLAACIANE 137
PRK04195 PRK04195
replication factor C large subunit; Provisional
 255-311 4.64e-04

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 42.22  E-value: 4.64e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 21313044  255 NDIIGLDAAKQLVKE-AVVYPIRYPQlftgilspwKGLLLYGPPGTGKTLLAKAVATE 311
Cdd:PRK04195  14 SDVVGNEKAKEQLREwIESWLKGKPK---------KALLLYGPPGVGKTSLAHALAND 62
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 285-351 5.50e-04

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: 40.44  E-value: 5.50e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044 285 LSPWKGLLLYGPPGTGKTLLAKAVATEC---------------KTTFFNISASTIVSKWRgDSEKLVRVLFELARYHAPS 349
Cdd:cd19505   9 LSPSKGILLIGSIETGRSYLIKSLAANSyvplirislnkllynKPDFGNDDWIDGMLILK-ESLHRLNLQFELAKAMSPC 87


                ..
gi 21313044 350 TI 351
Cdd:cd19505  88 II 89
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 290-357 8.37e-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: 39.20  E-value: 8.37e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 21313044   290 GLLLYGPPGTGKTLLAK--AVATECKTTFF-----NISASTIVSKWRGDSEKLVRVLFELARyhA---PSTIFLDELE 357
Cdd:pfam07728   1 GVLLVGPPGTGKTELAErlAAALSNRPVFYvqltrDTTEEDLFGRRNIDPGGASWVDGPLVR--AareGEIAVLDEIN 76
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
289-318 9.00e-04

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


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 40.53  E-value: 9.00e-04
                        10        20        30
                ....*....|....*....|....*....|....*
gi 21313044 289 KGLLLYGPPGTGKTLLAKAVATEC-----KTTFFN 318
Cdd:COG1484 100 ENLILLGPPGTGKTHLAIALGHEAcragyRVRFTT 134
PRK13341 PRK13341
AAA family ATPase;
291-321 1.17e-03

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 41.19  E-value: 1.17e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 21313044  291 LLLYGPPGTGKTLLAKAVATECKTTFFNISA 321
Cdd:PRK13341  55 LILYGPPGVGKTTLARIIANHTRAHFSSLNA 85
YifB COG0606
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ...
 291-310 1.18e-03

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


Pssm-ID: 440371 [Multi-domain]  Cd Length: 502  Bit Score: 40.79  E-value: 1.18e-03
                        10        20
                ....*....|....*....|
gi 21313044 291 LLLYGPPGTGKTLLAKAVAT 310
Cdd:COG0606 214 LLMIGPPGSGKTMLARRLPG 233
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 291-310 1.54e-03

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


Pssm-ID: 426032 [Multi-domain]  Cd Length: 207  Bit Score: 39.44  E-value: 1.54e-03
                          10        20
                  ....*....|....*....|
gi 21313044   291 LLLYGPPGTGKTLLAKAVAT 310
Cdd:pfam01078  25 LLMIGPPGSGKTMLAKRLPG 44
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 291-315 2.13e-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: 38.64  E-value: 2.13e-03
                          10        20
                  ....*....|....*....|....*....
gi 21313044   291 LLLYGPPGTGKTLLAKAVATE----CKTT 315
Cdd:pfam05496  36 VLLYGPPGLGKTTLANIIANEmgvnIRIT 64
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
291-311 2.21e-03

Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 39.83  E-value: 2.21e-03
                        10        20
                ....*....|....*....|.
gi 21313044 291 LLLYGPPGTGKTLLAKAVATE 311
Cdd:COG1474  54 VLIYGPTGTGKTAVAKYVLEE 74
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 289-309 3.88e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 39.37  E-value: 3.88e-03
                        10        20
                ....*....|....*....|.
gi 21313044 289 KGLLLYGPPGTGKTLLAKAVA 309
Cdd:COG1401 222 KNVILAGPPGTGKTYLARRLA 242
Parvo_NS1 pfam01057
Parvovirus non-structural protein NS1; This family also contains the NS2 protein. Parvoviruses ...
 278-310 4.57e-03

Parvovirus non-structural protein NS1; This family also contains the NS2 protein. Parvoviruses encode two non-structural proteins, NS1 and NS2. The mRNA for NS2 contains the coding sequence for the first 87 amino acids of NS1, then by an alternative splicing mechanism mRNA from a different reading frame, encoding the last 78 amino acids, makes up the full length of the NS2 mRNA. NS1, is the major non-structural protein. It is essential for DNA replication. It is an 83-kDa nuclear phosphoprotein. It has DNA helicase and ATPase activity.


Pssm-ID: 426020  Cd Length: 271  Bit Score: 38.44  E-value: 4.57e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 21313044   278 PQLFTGILSPW----KG----LLLYGPPGTGKTLLAKAVAT 310
Cdd:pfam01057  95 PAEVGSVLLAWlskqFGkrntVWFYGPASTGKTNLAQAIAH 135
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 291-315 5.02e-03

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 38.52  E-value: 5.02e-03
                        10        20
                ....*....|....*....|....*....
gi 21313044 291 LLLYGPPGTGKTLLAKAVATE----CKTT 315
Cdd:COG2255  57 VLLYGPPGLGKTTLAHIIANEmgvnIRIT 85
RNA_helicase pfam00910
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
 291-402 5.28e-03

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


Pssm-ID: 459992  Cd Length: 102  Bit Score: 36.43  E-value: 5.28e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21313044   291 LLLYGPPGTGKTLLAKAVATECkTTFFNISASTIVSK------WRGdseklvrvlfelarYHAPSTIFLDELesvmsqrG 364
Cdd:pfam00910   1 IWLYGPPGCGKSTLAKYLARAL-LKKLGLPKDSVYSRnpdddfWDG--------------YTGQPVVIIDDF-------G 58

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 21313044   365 MVPGGEHEGSL-RMK--TELLVQMDGLA---RSEDLVFVLAASN 402
Cdd:pfam00910  59 QNPDGPDEAELiRLVssTPYPPPMAALEekgTPFTSKFVIVTSN 102
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 291-315 6.52e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 38.44  E-value: 6.52e-03
                          10        20
                  ....*....|....*....|....*....
gi 21313044   291 LLLYGPPGTGKTLLAKAVA----TECKTT 315
Cdd:TIGR00635  33 LLLYGPPGLGKTTLAHIIAnemgVNLKIT 61
Lon COG0466
ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, ...
 289-309 6.77e-03

ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440234 [Multi-domain]  Cd Length: 785  Bit Score: 38.84  E-value: 6.77e-03
                        10        20
                ....*....|....*....|...
gi 21313044 289 KG--LLLYGPPGTGKTLLAKAVA 309
Cdd:COG0466 351 KGpiLCLVGPPGVGKTSLGKSIA 373
 
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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