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Conserved domains on  [gi|2071683815|gb|QXV42575|]
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primosomal protein DnaI [Staphylococcus epidermidis]

Protein Classification

primosomal protein DnaI( domain architecture ID 11483475)

primosomal protein DnaI is involved in DNA replication and interacts with the main replicative DNA helicase DnaB; belongs to the AAA+ ATPase family and functions in loading the hexameric helicase ring onto ssDNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK08939 PRK08939
primosomal protein DnaI; Reviewed
 1-306 4.00e-175

primosomal protein DnaI; Reviewed


:

Pssm-ID: 236353 [Multi-domain]  Cd Length: 306  Bit Score: 486.30  E-value: 4.00e-175
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815   1 MKSFRNIMGdSQNLDKRIQKIKQNVINDTDVKHFLEKNRSNITNEMIDEDLNVLQEYKDQQKVYDGHryddCPNFVKGHV 80
Cdd:PRK08939    5 GKTLKKLMK-RQDFRKRYEKLKQEVLADPDVQAFLQEHQEELTQEMIDRSLSKLYEYIDQRKKCDRG----CPNYAKGYQ 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815  81 PELYIENERIKIRYLPCPCKIKHDEERFDSQLITSHHMQRDTLHAKLKDIYMNNRERLDVAMAADQICTAITNDEKVKGL 160
Cdd:PRK08939   80 PKLVMNGGYIDVSYLPTPEKIEADEEKAIKKRIQSIYMPKDLLQASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 161 YLYGPFGTGKSFILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKKLQRVREANILMLDDIGAEEVTPWVRDEV 240
Cdd:PRK08939  160 YLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAVKEAPVLMLDDIGAEQMSSWVRDEV 239

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2071683815 241 IGPLLHYRMVHELPTFFSSNFNYSELEHHLSITRDGT-EKTKAARIIERIKTLSTPYYLTGKNFRNN 306
Cdd:PRK08939  240 LGVILQYRMQEELPTFFTSNFDFDELEHHLAYTQRGEdETWKAARIMERIRYLAKEVHLEGKNRRNN 306
 
Name Accession Description Interval E-value
PRK08939 PRK08939
primosomal protein DnaI; Reviewed
 1-306 4.00e-175

primosomal protein DnaI; Reviewed


Pssm-ID: 236353 [Multi-domain]  Cd Length: 306  Bit Score: 486.30  E-value: 4.00e-175
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815   1 MKSFRNIMGdSQNLDKRIQKIKQNVINDTDVKHFLEKNRSNITNEMIDEDLNVLQEYKDQQKVYDGHryddCPNFVKGHV 80
Cdd:PRK08939    5 GKTLKKLMK-RQDFRKRYEKLKQEVLADPDVQAFLQEHQEELTQEMIDRSLSKLYEYIDQRKKCDRG----CPNYAKGYQ 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815  81 PELYIENERIKIRYLPCPCKIKHDEERFDSQLITSHHMQRDTLHAKLKDIYMNNRERLDVAMAADQICTAITNDEKVKGL 160
Cdd:PRK08939   80 PKLVMNGGYIDVSYLPTPEKIEADEEKAIKKRIQSIYMPKDLLQASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 161 YLYGPFGTGKSFILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKKLQRVREANILMLDDIGAEEVTPWVRDEV 240
Cdd:PRK08939  160 YLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAVKEAPVLMLDDIGAEQMSSWVRDEV 239

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2071683815 241 IGPLLHYRMVHELPTFFSSNFNYSELEHHLSITRDGT-EKTKAARIIERIKTLSTPYYLTGKNFRNN 306
Cdd:PRK08939  240 LGVILQYRMQEELPTFFTSNFDFDELEHHLAYTQRGEdETWKAARIMERIRYLAKEVHLEGKNRRNN 306
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
94-304 1.40e-39

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


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 138.76  E-value: 1.40e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815  94 YLPCPCKIKHDEERFDSQLITSHHMqrdTLHAKLKDIYMNNRERLDVAMAAD-QICTAItndEKVKGLYLYGPFGTGKSF 172
Cdd:COG1484    41 ALLLEAEVAEREQRRIERRLKAARF---PAAKTLEDFDFDAQPGLDRRQILElATLDFI---ERGENLILLGPPGTGKTH 114

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 173 ILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKKLQRVREANILMLDDIGAEEVTPWVRDEvIGPLLHYRMVHe 252
Cdd:COG1484   115 LAIALGHEACRAGYRVRFTTAPDLVNELKEARADGRLERLLKRLAKVDLLILDELGYLPLDAEGAEL-LFELISDRYER- 192

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2071683815 253 LPTFFSSNFNYSELEHHLsitrdgTEKTKAARIIERIKTLSTPYYLTGKNFR 304
Cdd:COG1484   193 RSTIITSNLPFSEWGEVF------GDPTLATAILDRLVHHAHIIELKGESYR 238
DnaI_N pfam07319
Primosomal protein DnaI N-terminus; This family represents the N-terminus (approximately 120 ...
 1-90 3.40e-26

Primosomal protein DnaI N-terminus; This family represents the N-terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase.


Pssm-ID: 429407  Cd Length: 90  Bit Score: 99.19  E-value: 3.40e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815   1 MKSFRNIMG---DSQNLDKRIQKIKQNVINDTDVKHFLEKNRSNITNEMIDEDLNVLQEYKDQQKVYDGhryDDCPNFVK 77
Cdd:pfam07319   1 MESIGETLKklmKRRNFRKRYEKLKEEVLSDPDVQAFLQEHPEELTQEMIDRSLSKLYEYVSQKKKCEN---GDCPNIAP 77

                          90
                  ....*....|...
gi 2071683815  78 GHVPELYIENERI 90
Cdd:pfam07319  78 GYQPKLVLNGGYI 90
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 158-266 9.24e-08

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


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 50.61  E-value: 9.24e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 158 KGLYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKKLQRVREAN----ILMLDDIGAeevt 233
Cdd:cd00009    20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKakpgVLFIDEIDS---- 95

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2071683815 234 pwvrdevIGPLLHYRMVHELPTFFSSNFNYSEL 266
Cdd:cd00009    96 -------LSRGAQNALLRVLETLNDLRIDRENV 121
DnaA TIGR00362
chromosomal replication initiator protein DnaA; DnaA is involved in DNA biosynthesis; ...
 160-227 3.55e-06

chromosomal replication initiator protein DnaA; DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273037 [Multi-domain]  Cd Length: 437  Bit Score: 47.91  E-value: 3.55e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2071683815 160 LYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLP------EFIRTLkggfKDGSFEKKLQRVREANILMLDDI 227
Cdd:TIGR00362 140 LFIYGGVGLGKTHLLHAIGNEILENNPNAKVLYVSsekftnDFVNAL----RNNKMEEFKEKYRSVDLLLIDDI 209
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 158-229 2.00e-03

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: 38.12  E-value: 2.00e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815  158 KGLYLYGPFGTGKSFILGAIANQLKSQKIS------STIVYLPEFIRTLKGGFKDGSFEKKLQRVREAN---------IL 222
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARELGPPGGGviyidgEDILEEVLDQLLLIIVGGKKASGSGELRLRLALalarklkpdVL 82


                   ....*..
gi 2071683815  223 MLDDIGA 229
Cdd:smart00382  83 ILDEITS 89
ZapE NF040713
cell division protein ZapE;
154-174 4.95e-03

cell division protein ZapE;


Pssm-ID: 468677 [Multi-domain]  Cd Length: 344  Bit Score: 38.27  E-value: 4.95e-03
                          10        20
                  ....*....|....*....|.
gi 2071683815 154 DEKVKGLYLYGPFGTGKSFIL 174
Cdd:NF040713   49 KSPPRGLYLWGGVGRGKTMLM 69
 
Name Accession Description Interval E-value
PRK08939 PRK08939
primosomal protein DnaI; Reviewed
 1-306 4.00e-175

primosomal protein DnaI; Reviewed


Pssm-ID: 236353 [Multi-domain]  Cd Length: 306  Bit Score: 486.30  E-value: 4.00e-175
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815   1 MKSFRNIMGdSQNLDKRIQKIKQNVINDTDVKHFLEKNRSNITNEMIDEDLNVLQEYKDQQKVYDGHryddCPNFVKGHV 80
Cdd:PRK08939    5 GKTLKKLMK-RQDFRKRYEKLKQEVLADPDVQAFLQEHQEELTQEMIDRSLSKLYEYIDQRKKCDRG----CPNYAKGYQ 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815  81 PELYIENERIKIRYLPCPCKIKHDEERFDSQLITSHHMQRDTLHAKLKDIYMNNRERLDVAMAADQICTAITNDEKVKGL 160
Cdd:PRK08939   80 PKLVMNGGYIDVSYLPTPEKIEADEEKAIKKRIQSIYMPKDLLQASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGL 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 161 YLYGPFGTGKSFILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKKLQRVREANILMLDDIGAEEVTPWVRDEV 240
Cdd:PRK08939  160 YLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAVKEAPVLMLDDIGAEQMSSWVRDEV 239

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2071683815 241 IGPLLHYRMVHELPTFFSSNFNYSELEHHLSITRDGT-EKTKAARIIERIKTLSTPYYLTGKNFRNN 306
Cdd:PRK08939  240 LGVILQYRMQEELPTFFTSNFDFDELEHHLAYTQRGEdETWKAARIMERIRYLAKEVHLEGKNRRNN 306
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
94-304 1.40e-39

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


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 138.76  E-value: 1.40e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815  94 YLPCPCKIKHDEERFDSQLITSHHMqrdTLHAKLKDIYMNNRERLDVAMAAD-QICTAItndEKVKGLYLYGPFGTGKSF 172
Cdd:COG1484    41 ALLLEAEVAEREQRRIERRLKAARF---PAAKTLEDFDFDAQPGLDRRQILElATLDFI---ERGENLILLGPPGTGKTH 114

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 173 ILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKKLQRVREANILMLDDIGAEEVTPWVRDEvIGPLLHYRMVHe 252
Cdd:COG1484   115 LAIALGHEACRAGYRVRFTTAPDLVNELKEARADGRLERLLKRLAKVDLLILDELGYLPLDAEGAEL-LFELISDRYER- 192

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2071683815 253 LPTFFSSNFNYSELEHHLsitrdgTEKTKAARIIERIKTLSTPYYLTGKNFR 304
Cdd:COG1484   193 RSTIITSNLPFSEWGEVF------GDPTLATAILDRLVHHAHIIELKGESYR 238
DnaI_N pfam07319
Primosomal protein DnaI N-terminus; This family represents the N-terminus (approximately 120 ...
 1-90 3.40e-26

Primosomal protein DnaI N-terminus; This family represents the N-terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase.


Pssm-ID: 429407  Cd Length: 90  Bit Score: 99.19  E-value: 3.40e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815   1 MKSFRNIMG---DSQNLDKRIQKIKQNVINDTDVKHFLEKNRSNITNEMIDEDLNVLQEYKDQQKVYDGhryDDCPNFVK 77
Cdd:pfam07319   1 MESIGETLKklmKRRNFRKRYEKLKEEVLSDPDVQAFLQEHPEELTQEMIDRSLSKLYEYVSQKKKCEN---GDCPNIAP 77

                          90
                  ....*....|...
gi 2071683815  78 GHVPELYIENERI 90
Cdd:pfam07319  78 GYQPKLVLNGGYI 90
PRK08116 PRK08116
hypothetical protein; Validated
 159-304 1.13e-23

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 97.40  E-value: 1.13e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 159 GLYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKK---LQRVREANILMLDDIGAEEVTPW 235
Cdd:PRK08116  116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDEneiIRSLVNADLLILDDLGAERDTEW 195

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 236 VRDEVIGPLLH-YRmvHELPTFFSSNFNYSELEHHLSitrdgtektkaARIIERIKTLSTPYYLTGKNFR 304
Cdd:PRK08116  196 AREKVYNIIDSrYR--KGLPTIVTTNLSLEELKNQYG-----------KRIYDRILEMCTPVENEGKSYR 252
DnaA COG0593
Chromosomal replication initiation ATPase DnaA [Replication, recombination and repair];
160-227 7.51e-09

Chromosomal replication initiation ATPase DnaA [Replication, recombination and repair];


Pssm-ID: 440358 [Multi-domain]  Cd Length: 303  Bit Score: 55.58  E-value: 7.51e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 160 LYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLP--EFIRTLKGGFKDGSFEKKLQRVREANILMLDDI 227
Cdd:COG0593    37 LFLYGGVGLGKTHLLHAIGNEALENNPGARVVYLTaeEFTNDFINAIRNNTIEEFKEKYRSVDVLLIDDI 106
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 158-266 9.24e-08

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


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 50.61  E-value: 9.24e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 158 KGLYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKKLQRVREAN----ILMLDDIGAeevt 233
Cdd:cd00009    20 KNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKakpgVLFIDEIDS---- 95

                          90       100       110
                  ....*....|....*....|....*....|...
gi 2071683815 234 pwvrdevIGPLLHYRMVHELPTFFSSNFNYSEL 266
Cdd:cd00009    96 -------LSRGAQNALLRVLETLNDLRIDRENV 121
PRK06835 PRK06835
DNA replication protein DnaC; Validated
 154-304 2.19e-07

DNA replication protein DnaC; Validated


Pssm-ID: 235871 [Multi-domain]  Cd Length: 329  Bit Score: 51.44  E-value: 2.19e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 154 DEKVKGLYLYGPFGTGKSFILGAIANQLKSQKisSTIVYL--PEFIRTLKGG-FK-DGSFEKKLQRVREANILMLDDIGA 229
Cdd:PRK06835  180 DKNNENLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRtaDELIEILREIrFNnDKELEEVYDLLINCDLLIIDDLGT 257

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2071683815 230 EEVTPWVRDEVIGpLLHYRMVHELPTFFSSNFNYSELehhlsitrdgtEKTKAARIIERIKTLSTPYYLTGKNFR 304
Cdd:PRK06835  258 EKITEFSKSELFN-LINKRLLRQKKMIISTNLSLEEL-----------LKTYSERISSRLLGNFTLLKFYGEDIR 320
PRK06921 PRK06921
hypothetical protein; Provisional
 149-290 2.26e-06

hypothetical protein; Provisional


Pssm-ID: 180750 [Multi-domain]  Cd Length: 266  Bit Score: 48.24  E-value: 2.26e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 149 TAITNDEKvKGLYLYGPFGTGKSFILGAIANQLKSQKISSTIvYLP--EFIRTLKGGFKdgSFEKKLQRVREANILMLDD 226
Cdd:PRK06921  110 EKIQESRK-NSIALLGQPGSGKTHLLTAAANELMRKKGVPVL-YFPfvEGFGDLKDDFD--LLEAKLNRMKKVEVLFIDD 185

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2071683815 227 I-----GAEEVTPWvRDEVIGPLLHYRMVHELPTFFSSNFNYSELehhLSItrdgtEKTKAARIIERIK 290
Cdd:PRK06921  186 LfkpvnGKPRATEW-QIEQMYSVLNYRYLNHKPILISSELTIDEL---LDI-----DEALGSRIVEMCK 245
DnaA TIGR00362
chromosomal replication initiator protein DnaA; DnaA is involved in DNA biosynthesis; ...
 160-227 3.55e-06

chromosomal replication initiator protein DnaA; DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273037 [Multi-domain]  Cd Length: 437  Bit Score: 47.91  E-value: 3.55e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2071683815 160 LYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLP------EFIRTLkggfKDGSFEKKLQRVREANILMLDDI 227
Cdd:TIGR00362 140 LFIYGGVGLGKTHLLHAIGNEILENNPNAKVLYVSsekftnDFVNAL----RNNKMEEFKEKYRSVDLLLIDDI 209
dnaA PRK00149
chromosomal replication initiator protein DnaA;
160-227 5.08e-06

chromosomal replication initiator protein DnaA;


Pssm-ID: 234667 [Multi-domain]  Cd Length: 401  Bit Score: 47.44  E-value: 5.08e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2071683815 160 LYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLP------EFIRTLkggfKDGSFEKKLQRVREANILMLDDI 227
Cdd:PRK00149  102 LFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTsekftnDFVNAL----RNNTMEEFKEKYRSVDVLLIDDI 171
PRK12377 PRK12377
putative replication protein; Provisional
 133-266 1.30e-05

putative replication protein; Provisional


Pssm-ID: 183482 [Multi-domain]  Cd Length: 248  Bit Score: 45.60  E-value: 1.30e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 133 NNRERLDVAMA---ADQICTAITNdekvkgLYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDG-S 208
Cdd:PRK12377   80 NDGQRYALSQAksiADELMTGCTN------FVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHESYDNGqS 153

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 209 FEKKLQRVREANILMLDDIGAEEVTpwvRDE--VIGPLLHYRMVHELPTFFSSNFNYSEL 266
Cdd:PRK12377  154 GEKFLQELCKVDLLVLDEIGIQRET---KNEqvVLNQIIDRRTASMRSVGMLTNLNHEAM 210
IstB_IS21 pfam01695
IstB-like ATP binding protein; This protein contains an ATP/GTP binding P-loop motif. It is ...
 155-228 2.83e-05

IstB-like ATP binding protein; This protein contains an ATP/GTP binding P-loop motif. It is found associated with IS21 family insertion sequences. The function of this protein is unknown, but it may perform a transposase function.


Pssm-ID: 426385 [Multi-domain]  Cd Length: 238  Bit Score: 44.36  E-value: 2.83e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2071683815 155 EKVKGLYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLPEFIRTLKGGFKDGSFEKKLQRVREANILMLDDIG 228
Cdd:pfam01695  90 DRAQNVVLLGPPGVGKTHLAIALGVEACRAGYSVRFTSAADLVNQLKRAHGDGKLTRKLQQLLKPDVLILDEWG 163
Bac_DnaA pfam00308
Bacterial dnaA protein;
160-227 4.51e-05

Bacterial dnaA protein;


Pssm-ID: 278724 [Multi-domain]  Cd Length: 219  Bit Score: 43.86  E-value: 4.51e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 160 LYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLP--EFIRTLKGGFKDGSFEKKLQRVREANILMLDDI 227
Cdd:pfam00308  37 LFIYGGVGLGKTHLLHAIGNYALQNAPNLRVVYLTaeEFLNDFVDAIRDNKTNQFKEKYRNVDVLLIDDI 106
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 157-255 4.99e-04

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


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 39.97  E-value: 4.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 157 VKGLYLYGPFGTGKSFILGAIANQLKSQKISstiVYLPEFIRTLKggfkdGSFEKKLQRV-REAN-----ILMLDDIGAe 230
Cdd:cd19503    34 PRGVLLHGPPGTGKTLLARAVANEAGANFLS---ISGPSIVSKYL-----GESEKNLREIfEEARshapsIIFIDEIDA- 104

                          90       100
                  ....*....|....*....|....*
gi 2071683815 231 eVTPwVRDEVIGPlLHYRMVHELPT 255
Cdd:cd19503   105 -LAP-KREEDQRE-VERRVVAQLLT 126
dnaA PRK14086
chromosomal replication initiator protein DnaA;
160-227 5.48e-04

chromosomal replication initiator protein DnaA;


Pssm-ID: 237605 [Multi-domain]  Cd Length: 617  Bit Score: 41.35  E-value: 5.48e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2071683815 160 LYLYGPFGTGKSFILGAIANQLKSQKISSTIVYLP------EFIRTLKGGFKDGsFEKklqRVREANILMLDDI 227
Cdd:PRK14086  317 LFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSseeftnEFINSIRDGKGDS-FRR---RYREMDILLVDDI 386
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 155-245 9.84e-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: 40.66  E-value: 9.84e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 155 EKVKGLYLYGPFGTGKSFILGAIANQLKSQKISstiVYLPEFIRTLKggfkdGSFEKKLQRV-REA-----NILMLDDIG 228
Cdd:TIGR01243 210 EPPKGVLLYGPPGTGKTLLAKAVANEAGAYFIS---INGPEIMSKYY-----GESEERLREIfKEAeenapSIIFIDEID 281

                          90       100
                  ....*....|....*....|..
gi 2071683815 229 A-----EEVTPWVRDEVIGPLL 245
Cdd:TIGR01243 282 AiapkrEEVTGEVEKRVVAQLL 303
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 153-227 1.61e-03

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: 38.42  E-value: 1.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 153 NDEKVKGLYLYGPFGTGKSFILGAIANQLKSqkisstivylpEFIRtLKGGFKDGSF----EKKLQRV-REAN-----IL 222
Cdd:cd19481    22 GLGLPKGILLYGPPGTGKTLLAKALAGELGL-----------PLIV-VKLSSLLSKYvgesEKNLRKIfERARrlapcIL 89


                  ....*
gi 2071683815 223 MLDDI 227
Cdd:cd19481    90 FIDEI 94
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 160-227 1.76e-03

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: 37.96  E-value: 1.76e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815 160 LYLYGPFGTGKSFILGAIANQLKSQKISstiVYLPEFIRTLkGGFKDGSFEKKLQRVREAN--ILMLDDI 227
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIE---ISGSELVSKY-VGESEKRLRELFEAAKKLApcVIFIDEI 66
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 158-229 2.00e-03

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: 38.12  E-value: 2.00e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2071683815  158 KGLYLYGPFGTGKSFILGAIANQLKSQKIS------STIVYLPEFIRTLKGGFKDGSFEKKLQRVREAN---------IL 222
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARELGPPGGGviyidgEDILEEVLDQLLLIIVGGKKASGSGELRLRLALalarklkpdVL 82


                   ....*..
gi 2071683815  223 MLDDIGA 229
Cdd:smart00382  83 ILDEITS 89
ZapE NF040713
cell division protein ZapE;
154-174 4.95e-03

cell division protein ZapE;


Pssm-ID: 468677 [Multi-domain]  Cd Length: 344  Bit Score: 38.27  E-value: 4.95e-03
                          10        20
                  ....*....|....*....|.
gi 2071683815 154 DEKVKGLYLYGPFGTGKSFIL 174
Cdd:NF040713   49 KSPPRGLYLWGGVGRGKTMLM 69
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 158-229 5.88e-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: 36.93  E-value: 5.88e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2071683815 158 KGLYLYGPFGTGKSFILGAIANQLKSQKI---SSTIV--YLPEFIRTLKGGFkdgsfekKLQRVREANILMLDDIGA 229
Cdd:cd19502    38 KGVLLYGPPGTGKTLLAKAVANHTDATFIrvvGSELVqkYIGEGARLVRELF-------EMAREKAPSIIFIDEIDA 107
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 158-198 6.09e-03

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 37.68  E-value: 6.09e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 2071683815 158 KGLYLYGPFGTGKSFILGAIANQLKSQKISstiVYLPEFIR 198
Cdd:COG1222   113 KGVLLYGPPGTGKTLLAKAVAGELGAPFIR---VRGSELVS 150
 
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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