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Conserved domains on  [gi|21358125|ref|NP_652608|]
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pontin [Drosophila melanogaster]

Protein Classification

RuvB-like helicase( domain architecture ID 15918217)

RuvB-like helicase is a DNA helicase that plays an essential role in various complexes involved in fundamental processes such as transcription regulation, DNA damage response and apoptosis (via the chromatin remodelling complexes SWR1, INO80 and TIP60), maturation of small nuclear ribonucleoproteins, cellular development, cancer metastasis, and regulation of mitosis

EC:  3.6.4.12
Gene Ontology:  GO:0005524|GO:0003678|GO:0006259
PubMed:  10787406

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
14-351 0e+00

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: 573.10  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125    14 RIAAHSHVKGLGLDEVGAAVHSAAGLVGQKAAREAAGIVVDLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGNKVPF 93
Cdd:pfam06068   1 RISAHSHIRGLGLDEDGEARYVSGGLVGQEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDTPF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125    94 CPMVGSEVFSNEIKKTEVLMENFRRSIGLRIRETKEVYEGEVTELTPVETENPMGGyGKTISNVVIGLKTAKGTKQLKLD 173
Cdd:pfam06068  81 TSISGSEVYSLEMKKTEALTQAFRKAIGVRIKEEKEVYEGEVVELEIEEAENPLSG-GKTIKGGKITLKTTKMEKTLKLG 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   174 PSIFDALQKEKVEVGDVIYIEANSGAVKRQGRSDTFATEFDLETEEYVPLPKGDVHKKKEVIQDVTLHDLDVANARPqgg 253
Cdd:pfam06068 160 PKIYEQLQKEKVSAGDVIYIDKNTGRVKKLGRSFARATDFDLEATEFVPCPKGEVHKRKEVVQTVTLHDIDVANARP--- 236
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   254 QDVLSMmgqlMKPKKTEITDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLESPIAPIVIFATNR 333
Cdd:pfam06068 237 QGILSL----FSPKKGEITSELREEINKKVNKWIEEGKAEIVPGVLFIDEVHMLDIECFSFLNRALESDLAPIVILATNR 312
                         330
                  ....*....|....*...
gi 21358125   334 GRCVIRGtTDIVSPHGIP 351
Cdd:pfam06068 313 GICTIRG-TDIISPHGIP 329
TIP49_C pfam17856
TIP49 AAA-lid domain; This family consists of the C-terminal region of several eukaryotic and ...
374-439 2.18e-22

TIP49 AAA-lid 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: 436097 [Multi-domain]  Cd Length: 66  Bit Score: 90.01  E-value: 2.18e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125   374 IIKLRAQTEGLQLEENAFTRLSEIGTSSTLRYAVQLLTPAHQMCKVNGRNQISKDDIEDVHSLFLD 439
Cdd:pfam17856   1 ILKIRAQEEGVKIDEEALDLLAKIGTETSLRYAIQLLTPASILAKKRGGKEVEVQDVEEAYELFLD 66
 
Name Accession Description Interval E-value
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
14-351 0e+00

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: 573.10  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125    14 RIAAHSHVKGLGLDEVGAAVHSAAGLVGQKAAREAAGIVVDLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGNKVPF 93
Cdd:pfam06068   1 RISAHSHIRGLGLDEDGEARYVSGGLVGQEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDTPF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125    94 CPMVGSEVFSNEIKKTEVLMENFRRSIGLRIRETKEVYEGEVTELTPVETENPMGGyGKTISNVVIGLKTAKGTKQLKLD 173
Cdd:pfam06068  81 TSISGSEVYSLEMKKTEALTQAFRKAIGVRIKEEKEVYEGEVVELEIEEAENPLSG-GKTIKGGKITLKTTKMEKTLKLG 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   174 PSIFDALQKEKVEVGDVIYIEANSGAVKRQGRSDTFATEFDLETEEYVPLPKGDVHKKKEVIQDVTLHDLDVANARPqgg 253
Cdd:pfam06068 160 PKIYEQLQKEKVSAGDVIYIDKNTGRVKKLGRSFARATDFDLEATEFVPCPKGEVHKRKEVVQTVTLHDIDVANARP--- 236
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   254 QDVLSMmgqlMKPKKTEITDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLESPIAPIVIFATNR 333
Cdd:pfam06068 237 QGILSL----FSPKKGEITSELREEINKKVNKWIEEGKAEIVPGVLFIDEVHMLDIECFSFLNRALESDLAPIVILATNR 312
                         330
                  ....*....|....*...
gi 21358125   334 GRCVIRGtTDIVSPHGIP 351
Cdd:pfam06068 313 GICTIRG-TDIISPHGIP 329
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
3-455 1.64e-168

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 481.39  E-value: 1.64e-168
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   3 IEEVKSTVRTQRIAAHSHVKGLGLDEVGAAVHSAAGLVGQKAAREAAGIVVDLIKSKKMAGRALLLAGPPGTGKTAIALA 82
Cdd:COG1224   4 IREIEKVKEFERISAHSHIRGLGLDENGKAKFVADGLVGQVEAREAAGIVVKMIKEGKMAGKGILIVGPPGTGKTALAVA 83
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  83 IAQELGNKVPFCPMVGSEVFSNEIKKTEVLMENFRRSIGLRIRETKEVYEGEVTELTPVETENPMGGYGKTISNVVIGLK 162
Cdd:COG1224  84 IARELGEDTPFVAISGSEIYSAELKKTEFLMQALRKAIGVRVREKRKVYEGVVKEIKIRYARHPYNPYVKVPREATITLA 163
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125 163 TAKGTKQLKLDPSIFDALQKEKVEVGDVIYIEANSGAVKRQGRSDTFATE-FDLETEEYVPLPKGDVHKKKEVIQDVTLH 241
Cdd:COG1224 164 TKDEEKTLTVGEEIAQQLVELGIRKGDVIWIDAETGRVSKLGRAKGEGAKtYDIETKRIVEVPSGPVKKEKEIVRTLTLH 243
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125 242 DLDVANARPQGGqdVLSMMGQlmkPKKTEITDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLES 321
Cdd:COG1224 244 DLDLYLAAQRAA--FSALFGF---FEEREIPSEVRKQVDELVKKWIEEGKAELVPGVLFIDDAHMLDIEAFSFLTRAMES 318
                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125 322 PIAPIVIFATNRGRCVIRGtTDIVSPHGIPLDLLDRLLIIRTLLYSTADMEQIIKLRAQTEGLQLEENAFTRLSEIGTSS 401
Cdd:COG1224 319 ELAPIIILATNRGITKIRG-TDIESPHGIPLDLLDRLLIIPTRPYTEDEIREIIKIRAEEEDIELSDDALEELTKIGVER 397
                       410       420       430       440       450
                ....*....|....*....|....*....|....*....|....*....|....
gi 21358125 402 TLRYAVQLLTPAHQMCKVNGRNQISKDDIEDVHSLFLDAKRSSKHLSEKNNKFM 455
Cdd:COG1224 398 SLRYAVQLLEPAYIIAKRRGRSKVTVEDVEEASKLFADVKESVEYVKEYEELFL 451
TIP49_C pfam17856
TIP49 AAA-lid domain; This family consists of the C-terminal region of several eukaryotic and ...
374-439 2.18e-22

TIP49 AAA-lid 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: 436097 [Multi-domain]  Cd Length: 66  Bit Score: 90.01  E-value: 2.18e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125   374 IIKLRAQTEGLQLEENAFTRLSEIGTSSTLRYAVQLLTPAHQMCKVNGRNQISKDDIEDVHSLFLD 439
Cdd:pfam17856   1 ILKIRAQEEGVKIDEEALDLLAKIGTETSLRYAIQLLTPASILAKKRGGKEVEVQDVEEAYELFLD 66
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
54-118 3.72e-08

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: 52.67  E-value: 3.72e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125  54 DLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSEVFSNEIKKTEVLMEN-FRR 118
Cdd:cd19481  17 RLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELG--LPLIVVKLSSLLSKYVGESEKNLRKiFER 80
PRK04195 PRK04195
replication factor C large subunit; Provisional
39-88 5.18e-07

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 51.85  E-value: 5.18e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 21358125   39 LVGQKAAREAagiVVDLIKS--KKMAGRALLLAGPPGTGKTAIALAIAQELG 88
Cdd:PRK04195  16 VVGNEKAKEQ---LREWIESwlKGKPKKALLLYGPPGVGKTSLAHALANDYG 64
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
40-91 2.31e-04

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: 43.06  E-value: 2.31e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 21358125    40 VGQKAAREAAGIVVDLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGNKV 91
Cdd:TIGR00635   7 IGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNL 58
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
63-88 9.20e-04

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: 39.66  E-value: 9.20e-04
                           10        20
                   ....*....|....*....|....*.
gi 21358125     63 GRALLLAGPPGTGKTAIALAIAQELG 88
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELG 27
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
62-97 3.65e-03

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


Pssm-ID: 439516  Cd Length: 232  Bit Score: 38.99  E-value: 3.65e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 21358125   62 AGRALLLAGPPGTGKTAIALAIAQEL---GNKVPFCPMV 97
Cdd:NF038214  89 RAENVLLLGPPGTGKTHLAIALGYAAcrqGYRVRFTTAA 127
 
Name Accession Description Interval E-value
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
14-351 0e+00

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: 573.10  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125    14 RIAAHSHVKGLGLDEVGAAVHSAAGLVGQKAAREAAGIVVDLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGNKVPF 93
Cdd:pfam06068   1 RISAHSHIRGLGLDEDGEARYVSGGLVGQEKAREAAGVIVEMIKEGKIAGRAVLIAGPPGTGKTALAIAISKELGEDTPF 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125    94 CPMVGSEVFSNEIKKTEVLMENFRRSIGLRIRETKEVYEGEVTELTPVETENPMGGyGKTISNVVIGLKTAKGTKQLKLD 173
Cdd:pfam06068  81 TSISGSEVYSLEMKKTEALTQAFRKAIGVRIKEEKEVYEGEVVELEIEEAENPLSG-GKTIKGGKITLKTTKMEKTLKLG 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   174 PSIFDALQKEKVEVGDVIYIEANSGAVKRQGRSDTFATEFDLETEEYVPLPKGDVHKKKEVIQDVTLHDLDVANARPqgg 253
Cdd:pfam06068 160 PKIYEQLQKEKVSAGDVIYIDKNTGRVKKLGRSFARATDFDLEATEFVPCPKGEVHKRKEVVQTVTLHDIDVANARP--- 236
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   254 QDVLSMmgqlMKPKKTEITDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLESPIAPIVIFATNR 333
Cdd:pfam06068 237 QGILSL----FSPKKGEITSELREEINKKVNKWIEEGKAEIVPGVLFIDEVHMLDIECFSFLNRALESDLAPIVILATNR 312
                         330
                  ....*....|....*...
gi 21358125   334 GRCVIRGtTDIVSPHGIP 351
Cdd:pfam06068 313 GICTIRG-TDIISPHGIP 329
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
3-455 1.64e-168

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 481.39  E-value: 1.64e-168
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   3 IEEVKSTVRTQRIAAHSHVKGLGLDEVGAAVHSAAGLVGQKAAREAAGIVVDLIKSKKMAGRALLLAGPPGTGKTAIALA 82
Cdd:COG1224   4 IREIEKVKEFERISAHSHIRGLGLDENGKAKFVADGLVGQVEAREAAGIVVKMIKEGKMAGKGILIVGPPGTGKTALAVA 83
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  83 IAQELGNKVPFCPMVGSEVFSNEIKKTEVLMENFRRSIGLRIRETKEVYEGEVTELTPVETENPMGGYGKTISNVVIGLK 162
Cdd:COG1224  84 IARELGEDTPFVAISGSEIYSAELKKTEFLMQALRKAIGVRVREKRKVYEGVVKEIKIRYARHPYNPYVKVPREATITLA 163
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125 163 TAKGTKQLKLDPSIFDALQKEKVEVGDVIYIEANSGAVKRQGRSDTFATE-FDLETEEYVPLPKGDVHKKKEVIQDVTLH 241
Cdd:COG1224 164 TKDEEKTLTVGEEIAQQLVELGIRKGDVIWIDAETGRVSKLGRAKGEGAKtYDIETKRIVEVPSGPVKKEKEIVRTLTLH 243
                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125 242 DLDVANARPQGGqdVLSMMGQlmkPKKTEITDKLRMEINKVVNKYIDQGIAELVPGVLFIDEIHMLDLETFTYLHKSLES 321
Cdd:COG1224 244 DLDLYLAAQRAA--FSALFGF---FEEREIPSEVRKQVDELVKKWIEEGKAELVPGVLFIDDAHMLDIEAFSFLTRAMES 318
                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125 322 PIAPIVIFATNRGRCVIRGtTDIVSPHGIPLDLLDRLLIIRTLLYSTADMEQIIKLRAQTEGLQLEENAFTRLSEIGTSS 401
Cdd:COG1224 319 ELAPIIILATNRGITKIRG-TDIESPHGIPLDLLDRLLIIPTRPYTEDEIREIIKIRAEEEDIELSDDALEELTKIGVER 397
                       410       420       430       440       450
                ....*....|....*....|....*....|....*....|....*....|....
gi 21358125 402 TLRYAVQLLTPAHQMCKVNGRNQISKDDIEDVHSLFLDAKRSSKHLSEKNNKFM 455
Cdd:COG1224 398 SLRYAVQLLEPAYIIAKRRGRSKVTVEDVEEASKLFADVKESVEYVKEYEELFL 451
TIP49_C pfam17856
TIP49 AAA-lid domain; This family consists of the C-terminal region of several eukaryotic and ...
374-439 2.18e-22

TIP49 AAA-lid 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: 436097 [Multi-domain]  Cd Length: 66  Bit Score: 90.01  E-value: 2.18e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125   374 IIKLRAQTEGLQLEENAFTRLSEIGTSSTLRYAVQLLTPAHQMCKVNGRNQISKDDIEDVHSLFLD 439
Cdd:pfam17856   1 ILKIRAQEEGVKIDEEALDLLAKIGTETSLRYAIQLLTPASILAKKRGGKEVEVQDVEEAYELFLD 66
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
66-110 1.48e-08

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: 52.98  E-value: 1.48e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 21358125    66 LLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSEVFSNEIKKTE 110
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELG--APFIEISGSELVSKYVGESE 43
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
54-118 3.72e-08

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: 52.67  E-value: 3.72e-08
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125  54 DLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSEVFSNEIKKTEVLMEN-FRR 118
Cdd:cd19481  17 RLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELG--LPLIVVKLSSLLSKYVGESEKNLRKiFER 80
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
40-88 5.46e-08

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: 52.12  E-value: 5.46e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 21358125    40 VGQKAAREAAGIVvdlIKSKKMAGRAL---LLAGPPGTGKTAIALAIAQELG 88
Cdd:pfam05496  10 IGQEKVKENLKIF---IEAAKQRGEALdhvLLYGPPGLGKTTLANIIANEMG 58
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
39-93 1.58e-07

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 52.19  E-value: 1.58e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 21358125  39 LVGQKAAREAAGIVVD-------LIKSKKMAGRALLLAGPPGTGKTAIALAIAQELgnKVPF 93
Cdd:COG1223   4 VVGQEEAKKKLKLIIKelrrrenLRKFGLWPPRKILFYGPPGTGKTMLAEALAGEL--KLPL 63
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
25-103 2.41e-07

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


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 52.61  E-value: 2.41e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  25 GLDEVGAAVHSAAGLVGQ-KAAREAAGIVVdlikskkmaGRALLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSEVFS 103
Cdd:COG0464 161 GLEEVKEELRELVALPLKrPELREEYGLPP---------PRGLLLYGPPGTGKTLLARALAGELG--LPLIEVDLSDLVS 229
PRK04195 PRK04195
replication factor C large subunit; Provisional
39-88 5.18e-07

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 51.85  E-value: 5.18e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 21358125   39 LVGQKAAREAagiVVDLIKS--KKMAGRALLLAGPPGTGKTAIALAIAQELG 88
Cdd:PRK04195  16 VVGNEKAKEQ---LREWIESwlKGKPKKALLLYGPPGVGKTSLAHALANDYG 64
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
62-103 6.47e-07

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 51.16  E-value: 6.47e-07
                        10        20        30        40
                ....*....|....*....|....*....|....*....|..
gi 21358125  62 AGRALLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSEVFS 103
Cdd:COG1222 111 PPKGVLLYGPPGTGKTLLAKAVAGELG--APFIRVRGSELVS 150
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
40-88 8.70e-07

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 50.51  E-value: 8.70e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 21358125   40 VGQKAAREAAGIVvdlIKSKKMAGRAL---LLAGPPGTGKTAIALAIAQELG 88
Cdd:PRK00080  28 IGQEKVKENLKIF---IEAAKKRGEALdhvLLYGPPGLGKTTLANIIANEMG 76
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
40-100 1.08e-06

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: 48.77  E-value: 1.08e-06
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 21358125  40 VGQKAAREAAGIVVDLIKS----KKMAGR---ALLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSE 100
Cdd:cd19501   7 AGCEEAKEELKEVVEFLKNpekfTKLGAKipkGVLLVGPPGTGKTLLAKAVAGEAG--VPFFSISGSD 72
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
40-123 1.26e-06

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: 47.91  E-value: 1.26e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  40 VGQKAAREAAGIVVDLIKskkmaGRALLLAGPPGTGKTAIALAIAQELGN-KVPFCPMVGSEVFSNEIKKTEVLMENFRR 118
Cdd:cd00009   1 VGQEEAIEALREALELPP-----PKNLLLYGPPGTGKTTLARAIANELFRpGAPFLYLNASDLLEGLVVAELFGHFLVRL 75

                ....*
gi 21358125 119 SIGLR 123
Cdd:cd00009  76 LFELA 80
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
42-88 1.35e-06

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 49.97  E-value: 1.35e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*..
gi 21358125  42 QKAAREAagiVVDLIKSKKMAgRALLLAGPPGTGKTAIALAIAQELG 88
Cdd:COG0470   1 QEEAWEQ---LLAAAESGRLP-HALLLHGPPGIGKTTLALALARDLL 43
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
40-88 2.04e-06

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


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 49.69  E-value: 2.04e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 21358125  40 VGQKAAREAAGIVvdlIKSKKMAGRAL---LLAGPPGTGKTAIALAIAQELG 88
Cdd:COG2255  31 IGQEKVKENLKIF---IEAAKKRGEALdhvLLYGPPGLGKTTLAHIIANEMG 79
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
64-118 1.11e-05

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: 45.36  E-value: 1.11e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSEVFSNEIKKTE-VLMENFRR 118
Cdd:cd19503  35 RGVLLHGPPGTGKTLLARAVANEAG--ANFLSISGPSIVSKYLGESEkNLREIFEE 88
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
35-100 2.74e-05

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 46.57  E-value: 2.74e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21358125   35 SAAGLVGQKAAREAAGIVVDLIKS----KKMAGR---ALLLAGPPGTGKTAIALAIAQELgnKVPFCPMVGSE 100
Cdd:PRK10733 150 TFADVAGCDEAKEEVAELVEYLREpsrfQKLGGKipkGVLMVGPPGTGKTLLAKAIAGEA--KVPFFTISGSD 220
ftsH CHL00176
cell division protein; Validated
67-100 4.53e-05

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 45.81  E-value: 4.53e-05
                         10        20        30
                 ....*....|....*....|....*....|....
gi 21358125   67 LLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSE 100
Cdd:CHL00176 220 LLVGPPGTGKTLLAKAIAGEAE--VPFFSISGSE 251
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
64-103 4.62e-05

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


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 43.93  E-value: 4.62e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQELgnKVPFCPMVGSEVFS 103
Cdd:cd19518  35 RGVLLHGPPGCGKTMLANAIAGEL--KVPFLKISATEIVS 72
rfc PRK00440
replication factor C small subunit; Reviewed
66-87 9.45e-05

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 44.09  E-value: 9.45e-05
                         10        20
                 ....*....|....*....|..
gi 21358125   66 LLLAGPPGTGKTAIALAIAQEL 87
Cdd:PRK00440  41 LLFAGPPGTGKTTAALALAREL 62
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
36-88 9.90e-05

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: 44.00  E-value: 9.90e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 21358125  36 AAGLVGQKAAREAAGIVVdlikskkMAGRALLLAGPPGTGKTAIALAIAQELG 88
Cdd:COG0714  11 GKVYVGQEELIELVLIAL-------LAGGHLLLEGVPGVGKTTLAKALARALG 56
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
59-90 1.09e-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: 42.93  E-value: 1.09e-04
                        10        20        30
                ....*....|....*....|....*....|..
gi 21358125  59 KKMAGRALLLAGPPGTGKTAIALAIAQELGNK 90
Cdd:cd19500  33 GSMKGPILCLVGPPGVGKTSLGKSIARALGRK 64
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
67-100 1.37e-04

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 44.05  E-value: 1.37e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 21358125   67 LLAGPPGTGKTAIALAIAQElgNKVPFCPMVGSE 100
Cdd:PRK03992 169 LLYGPPGTGKTLLAKAVAHE--TNATFIRVVGSE 200
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
37-115 1.48e-04

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: 42.16  E-value: 1.48e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  37 AGLVGQKAAREAAGIVV----DLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGNKvpFCPMVGSEVFSNEIKKTEVL 112
Cdd:cd19521  10 AGLEGAKEALKEAVILPvkfpHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEANST--FFSVSSSDLVSKWMGESEKL 87

                ...
gi 21358125 113 MEN 115
Cdd:cd19521  88 VKQ 90
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
46-88 1.71e-04

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


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 43.99  E-value: 1.71e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 21358125  46 REAAGIVVDLIKSKKMagraLLLAGPPGTGKTAIALAIAQELG 88
Cdd:COG1401 208 EETLEAFLAALKTKKN----VILAGPPGTGKTYLARRLAEALG 246
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
37-88 1.72e-04

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: 41.95  E-value: 1.72e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 21358125  37 AGLVGQKAA-REAagiVV------DLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELG 88
Cdd:cd19509   2 AGLDDAKEAlKEA---VIlpslrpDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESG 57
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
26-108 1.80e-04

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 43.53  E-value: 1.80e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   26 LDEVgaavhsaaglVGQKAAREAAGIVVDLIKSKKMAgrALLLAGPPGTGKTAIALAIAQELgnKVPFCPMvgSEVFSN- 104
Cdd:PRK13342  11 LDEV----------VGQEHLLGPGKPLRRMIEAGRLS--SMILWGPPGTGKTTLARIIAGAT--DAPFEAL--SAVTSGv 74

                 ....*
gi 21358125  105 -EIKK 108
Cdd:PRK13342  75 kDLRE 79
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
64-118 1.97e-04

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


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 41.89  E-value: 1.97e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSEVFSNEIKKTE-VLMENFRR 118
Cdd:cd19511  28 KGVLLYGPPGCGKTLLAKALASEAG--LNFISVKGPELFSKYVGESErAVREIFQK 81
DnaX COG2812
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
39-87 1.99e-04

DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];


Pssm-ID: 442061 [Multi-domain]  Cd Length: 340  Bit Score: 43.26  E-value: 1.99e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 21358125  39 LVGQKAAREAagivvdL---IKSKKMAGrALLLAGPPGTGKTAIALAIAQEL 87
Cdd:COG2812  12 VVGQEHVVRT------LknaLASGRLAH-AYLFTGPRGVGKTTLARILAKAL 56
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
64-119 2.19e-04

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


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 41.71  E-value: 2.19e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQELGNKvpFCPMVGSEVFSNEIKKTE-VLMENFRRS 119
Cdd:cd19529  28 KGILLYGPPGTGKTLLAKAVATESNAN--FISVKGPELLSKWVGESEkAIREIFRKA 82
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
40-91 2.31e-04

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: 43.06  E-value: 2.31e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 21358125    40 VGQKAAREAAGIVVDLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGNKV 91
Cdd:TIGR00635   7 IGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNL 58
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
67-100 2.44e-04

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 43.49  E-value: 2.44e-04
                        10        20        30
                ....*....|....*....|....*....|....
gi 21358125  67 LLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSE 100
Cdd:COG0465 179 LLVGPPGTGKTLLAKAVAGEAG--VPFFSISGSD 210
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
64-118 2.51e-04

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: 41.65  E-value: 2.51e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQELGnkVPFCPMVGSEVFSNEIKKTEvlmENFRR 118
Cdd:cd19519  35 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESE---SNLRK 84
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
24-87 5.27e-04

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: 42.52  E-value: 5.27e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125    24 LGLDEVGAAVHSAAGLVGQKAAREAAGIVVdlikskkmAGRA--LLLAGPPGTGKTAIALAIAQEL 87
Cdd:TIGR03922 279 IGLERVKRQVAALKSSTAMALARAERGLPV--------AQTSnhMLFAGPPGTGKTTIARVVAKIY 336
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
64-119 7.37e-04

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: 42.20  E-value: 7.37e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 21358125    64 RALLLAGPPGTGKTAIALAIAQELGNKvpFCPMVGSEVFSNEIKKTE-VLMENFRRS 119
Cdd:TIGR01243 488 KGVLLFGPPGTGKTLLAKAVATESGAN--FIAVRGPEILSKWVGESEkAIREIFRKA 542
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
63-88 9.20e-04

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: 39.66  E-value: 9.20e-04
                           10        20
                   ....*....|....*....|....*.
gi 21358125     63 GRALLLAGPPGTGKTAIALAIAQELG 88
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELG 27
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
64-110 1.13e-03

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: 39.80  E-value: 1.13e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQEL---GNKVPFCPMVGSEVFSNEIKKTE 110
Cdd:cd19517  35 RGVLFHGPPGTGKTLMARALAAECskgGQKVSFFMRKGADCLSKWVGEAE 84
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
26-88 1.14e-03

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 41.19  E-value: 1.14e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 21358125  26 LDEVgaavhsaaglVGQKAAREAAGIVVDLIKSKKMagRALLLAGPPGTGKTAIALAIAQELG 88
Cdd:COG2256  24 LDEV----------VGQEHLLGPGKPLRRAIEAGRL--SSMILWGPPGTGKTTLARLIANATD 74
PRK14950 PRK14950
DNA polymerase III subunits gamma and tau; Provisional
298-410 1.18e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237864 [Multi-domain]  Cd Length: 585  Bit Score: 41.33  E-value: 1.18e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  298 VLFIDEIHMLDLETFTYLHKSLESPiAPIVIFatnrgrcvIRGTTDIvspHGIPLDLLDRLLIIRTLLYSTADMEQIIKL 377
Cdd:PRK14950 123 VYIIDEVHMLSTAAFNALLKTLEEP-PPHAIF--------ILATTEV---HKVPATILSRCQRFDFHRHSVADMAAHLRK 190
                         90       100       110
                 ....*....|....*....|....*....|...
gi 21358125  378 RAQTEGLQLEENAFTRLSEIGTSStLRYAVQLL 410
Cdd:PRK14950 191 IAAAEGINLEPGALEAIARAATGS-MRDAENLL 222
bpMoxR pfam20030
MoxR domain in the MoxR-vWA-beta-propeller ternary systems; Core MoxR component domain of the ...
52-90 1.19e-03

MoxR domain in the MoxR-vWA-beta-propeller ternary systems; Core MoxR component domain of the MoxR-vWA-beta-propeller ternary systems, a class of NTP-dependent biological conflict systems.


Pssm-ID: 437862 [Multi-domain]  Cd Length: 205  Bit Score: 39.92  E-value: 1.19e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 21358125    52 VVDLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGNK 90
Cdd:pfam20030  20 IIDLLGLALVARENLFLLGPPGTAKSALVRRLAARLGGR 58
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
64-88 1.97e-03

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


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 38.94  E-value: 1.97e-03
                        10        20
                ....*....|....*....|....*
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQELG 88
Cdd:cd19520  36 KGVLLYGPPGCGKTMLAKATAKEAG 60
PRK14953 PRK14953
DNA polymerase III subunits gamma and tau; Provisional
298-432 2.22e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237867 [Multi-domain]  Cd Length: 486  Bit Score: 40.19  E-value: 2.22e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  298 VLFIDEIHMLDLETFTYLHKSLESPiAPIVIFatnrgrcvIRGTTDIvspHGIPldlLDRLLIIRTLLYSTADMEQII-- 375
Cdd:PRK14953 122 VYIIDEAHMLTKEAFNALLKTLEEP-PPRTIF--------ILCTTEY---DKIP---PTILSRCQRFIFSKPTKEQIKey 186
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 21358125  376 -KLRAQTEGLQLEENAFTRLSEIGTSStLRYAVQLLTPAhqmcKVNGRNQISKDDIED 432
Cdd:PRK14953 187 lKRICNEEKIEYEEKALDLLAQASEGG-MRDAASLLDQA----STYGEGKVTIKVVEE 239
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
64-100 2.71e-03

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 39.75  E-value: 2.71e-03
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 21358125   64 RALLLAGPPGTGKTAIALAIAQElgNKVPFCPMVGSE 100
Cdd:PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAHH--TTATFIRVVGSE 214
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
62-87 3.39e-03

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


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 38.99  E-value: 3.39e-03
                        10        20
                ....*....|....*....|....*.
gi 21358125  62 AGRALLLAGPPGTGKTAIALAIAQEL 87
Cdd:COG1484  98 RGENLILLGPPGTGKTHLAIALGHEA 123
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
62-97 3.65e-03

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


Pssm-ID: 439516  Cd Length: 232  Bit Score: 38.99  E-value: 3.65e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 21358125   62 AGRALLLAGPPGTGKTAIALAIAQEL---GNKVPFCPMV 97
Cdd:NF038214  89 RAENVLLLGPPGTGKTHLAIALGYAAcrqGYRVRFTTAA 127
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
42-94 3.78e-03

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 39.62  E-value: 3.78e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 21358125  42 QKAAREAagivvdLIKSKKMAGRALLLAGPPGTGKTAIALAIAQELGNKVPFC 94
Cdd:COG1061  85 QQEALEA------LLAALERGGGRGLVVAPTGTGKTVLALALAAELLRGKRVL 131
Lon COG0466
ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, ...
58-90 4.10e-03

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


Pssm-ID: 440234 [Multi-domain]  Cd Length: 785  Bit Score: 39.62  E-value: 4.10e-03
                        10        20        30
                ....*....|....*....|....*....|...
gi 21358125  58 SKKMAGRALLLAGPPGTGKTAIALAIAQELGNK 90
Cdd:COG0466 347 KKKLKGPILCLVGPPGVGKTSLGKSIARALGRK 379
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
64-100 4.44e-03

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: 38.09  E-value: 4.44e-03
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQELGNKvpFCPMVGSE 100
Cdd:cd19502  38 KGVLLYGPPGTGKTLLAKAVANHTDAT--FIRVVGSE 72
PRK12608 PRK12608
transcription termination factor Rho; Provisional
30-120 4.70e-03

transcription termination factor Rho; Provisional


Pssm-ID: 237150 [Multi-domain]  Cd Length: 380  Bit Score: 39.30  E-value: 4.70e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125   30 GAAVHSAAGLVGQKAAREAAGIVVDLIKSKKMAGRALLLAgPPGTGKTAIALAIAQELGNKVPfcpmvgsevfsnEIKKT 109
Cdd:PRK12608 101 LTPLHPRERLRLETGSDDLSMRVVDLVAPIGKGQRGLIVA-PPRAGKTVLLQQIAAAVAANHP------------EVHLM 167
                         90
                 ....*....|....*...
gi 21358125  110 EVLME-------NFRRSI 120
Cdd:PRK12608 168 VLLIDerpeevtDMRRSV 185
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
64-87 5.87e-03

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: 37.81  E-value: 5.87e-03
                        10        20
                ....*....|....*....|....
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQEL 87
Cdd:cd19508  53 RLVLLHGPPGTGKTSLCKALAQKL 76
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
64-118 5.90e-03

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: 37.85  E-value: 5.90e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 21358125  64 RALLLAGPPGTGKTAIALAIAQELGNKVPfcPMV-GSEVFSNEIKKTEvlmENFRR 118
Cdd:cd19504  36 KGILLYGPPGTGKTLMARQIGKMLNAREP--KIVnGPEILNKYVGESE---ANIRK 86
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
64-118 6.49e-03

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


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 39.12  E-value: 6.49e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 21358125    64 RALLLAGPPGTGKTAIALAIAQELGNKvpFCPMVGSEVFSNEIKKTEvlmENFRR 118
Cdd:TIGR01243 213 KGVLLYGPPGTGKTLLAKAVANEAGAY--FISINGPEIMSKYYGESE---ERLRE 262
44 PHA02544
clamp loader, small subunit; Provisional
66-93 6.68e-03

clamp loader, small subunit; Provisional


Pssm-ID: 222866 [Multi-domain]  Cd Length: 316  Bit Score: 38.43  E-value: 6.68e-03
                         10        20
                 ....*....|....*....|....*...
gi 21358125   66 LLLAGPPGTGKTAIALAIAQELGNKVPF 93
Cdd:PHA02544  46 LLHSPSPGTGKTTVAKALCNEVGAEVLF 73
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
59-118 7.99e-03

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: 37.11  E-value: 7.99e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  59 KKMAGraLLLAGPPGTGKTAIALAIAQELgnKVPFCPMVGSEVFSNEIKKTEvlmENFRR 118
Cdd:cd19527  24 RKRSG--ILLYGPPGTGKTLLAKAIATEC--SLNFLSVKGPELINMYIGESE---ANVRE 76
PRK14956 PRK14956
DNA polymerase III subunits gamma and tau; Provisional
269-331 8.17e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184920 [Multi-domain]  Cd Length: 484  Bit Score: 38.39  E-value: 8.17e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 21358125  269 TEITDKLR---MEINKVVNKYIDQgIAELVPGVLF-----------IDEIHMLDLETFTYLHKSLESPIAPIV-IFAT 331
Cdd:PRK14956  82 LEITKGISsdvLEIDAASNRGIEN-IRELRDNVKFapmggkykvyiIDEVHMLTDQSFNALLKTLEEPPAHIVfILAT 158
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
39-86 8.51e-03

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: 37.14  E-value: 8.51e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 21358125  39 LVGQKAAREAAGIVV-------DLIKSKKMAGRALLLAGPPGTGKTAIALAIAQE 86
Cdd:cd19524   2 IAGQDLAKQALQEMVilpslrpELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAE 56
PRK14957 PRK14957
DNA polymerase III subunits gamma and tau; Provisional
298-417 9.47e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184921 [Multi-domain]  Cd Length: 546  Bit Score: 38.52  E-value: 9.47e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 21358125  298 VLFIDEIHMLDLETFTYLHKSLESPiAPIVIFatnrgrcvIRGTTDIvspHGIPLDLLDRLLIIRTLLYSTADMEQIIKL 377
Cdd:PRK14957 122 VYLIDEVHMLSKQSFNALLKTLEEP-PEYVKF--------ILATTDY---HKIPVTILSRCIQLHLKHISQADIKDQLKI 189
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 21358125  378 RAQTEGLQLEENAFTRLSEIGTSStLRYAVQLLTPAHQMC 417
Cdd:PRK14957 190 ILAKENINSDEQSLEYIAYHAKGS-LRDALSLLDQAISFC 228
PRK08116 PRK08116
hypothetical protein; Validated
63-109 9.77e-03

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 37.69  E-value: 9.77e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 21358125   63 GRALLLAGPPGTGKTAIALAIAQELGNK-VPFCpMVGSEVFSNEIKKT 109
Cdd:PRK08116 114 NVGLLLWGSVGTGKTYLAACIANELIEKgVPVI-FVNFPQLLNRIKST 160
 
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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