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Conserved domains on  [gi|143295099|gb|EDE16998|]
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hypothetical protein GOS_1177413, partial [marine metagenome]

Protein Classification

DnaB-like helicase C-terminal domain-containing protein( domain architecture ID 12047422)

DnaB-like helicase C-terminal domain-containing protein contains an ATP-binding site

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DnaB_C pfam03796
DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at ...
 1-253 7.66e-163

DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.


:

Pssm-ID: 427509 [Multi-domain]  Cd Length: 254  Bit Score: 451.48  E-value: 7.66e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099    1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:pfam03796   2 LPTGFTDLDRLTGGLQPGDLIIIAARPSMGKTAFALNIARNAAVKHKKPVAIFSLEMSAEQLVMRLLASEAGVDSQKLRT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:pfam03796  82 GQLTDEDWEKLAKAAGRLSEAPLYIDDTPGLSIAEIRAKARRLKREHGLGLIVIDYLQLMSGGSRGENRQQEISEISRSL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGEADLNVAKHRNGPTKII 240
Cdd:pfam03796 162 KALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGAIEQDADVVMFLYRDEYYNPKEPEGKAEIIIAKQRNGPTGTV 241

                         250
                  ....*....|...
gi 143295099  241 TVASLLHFAKFAD 253
Cdd:pfam03796 242 KLAFLGEYTRFEN 254
 
Name Accession Description Interval E-value
DnaB_C pfam03796
DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at ...
 1-253 7.66e-163

DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.


Pssm-ID: 427509 [Multi-domain]  Cd Length: 254  Bit Score: 451.48  E-value: 7.66e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099    1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:pfam03796   2 LPTGFTDLDRLTGGLQPGDLIIIAARPSMGKTAFALNIARNAAVKHKKPVAIFSLEMSAEQLVMRLLASEAGVDSQKLRT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:pfam03796  82 GQLTDEDWEKLAKAAGRLSEAPLYIDDTPGLSIAEIRAKARRLKREHGLGLIVIDYLQLMSGGSRGENRQQEISEISRSL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGEADLNVAKHRNGPTKII 240
Cdd:pfam03796 162 KALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGAIEQDADVVMFLYRDEYYNPKEPEGKAEIIIAKQRNGPTGTV 241

                         250
                  ....*....|...
gi 143295099  241 TVASLLHFAKFAD 253
Cdd:pfam03796 242 KLAFLGEYTRFEN 254
DnaB TIGR00665
replicative DNA helicase; This model describes the helicase DnaB, a homohexameric protein ...
 1-255 1.07e-159

replicative DNA helicase; This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of > 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273206 [Multi-domain]  Cd Length: 432  Bit Score: 450.34  E-value: 1.07e-159
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099    1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:TIGR00665 177 VPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSAEQLVMRMLSSESRVDSQKLRT 256

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:TIGR00665 257 GRLSDEDWEKLTEAAGELSEAPLYIDDTPGLTITELRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEVSEISRSL 336

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD-SQNRSGEADLNVAKHRNGPTKI 239
Cdd:TIGR00665 337 KALAKELNVPVIALSQLSRSVEQREDKRPQLSDLRESGSIEQDADIVMFLYRDEYYNpDSEDKGIAEIIIAKQRNGPTGT 416

                         250
                  ....*....|....*.
gi 143295099  240 ITVASLLHFAKFADMA 255
Cdd:TIGR00665 417 VKLAFLGEYTRFENLA 432
DnaB COG0305
Replicative DNA helicase [Replication, recombination and repair];
1-255 2.11e-157

Replicative DNA helicase [Replication, recombination and repair];


Pssm-ID: 440074 [Multi-domain]  Cd Length: 429  Bit Score: 444.52  E-value: 2.11e-157
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:COG0305  174 VPTGFTDLDKLTGGLQPGDLIILAARPSMGKTAFALNIARNAAIKEGKPVAIFSLEMSAEQLVMRLLSSEARIDSSKLRT 253

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:COG0305  254 GKLSDEDWERLSSAAGELSEAPIYIDDTPGLTIAEIRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEISEISRSL 333

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTKI 239
Cdd:COG0305  334 KALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGSIEQDADVVMFLYRDEYYNPDSeDKGIAEIIIAKQRNGPTGT 413

                        250
                 ....*....|....*.
gi 143295099 240 ITVASLLHFAKFADMA 255
Cdd:COG0305  414 VKLAFDGEYTRFENLA 429
PRK05636 PRK05636
replicative DNA helicase; Provisional
 1-255 1.73e-143

replicative DNA helicase; Provisional


Pssm-ID: 180177 [Multi-domain]  Cd Length: 505  Bit Score: 411.93  E-value: 1.73e-143
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK05636 248 IPTGFKDLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLEMSKSEIVMRLLSAEAEVRLSDMRG 327

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK05636 328 GKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMSSGKRVESRQQEVSEFSRQL 407

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTKI 239
Cdd:PRK05636 408 KLLAKELDVPLIAISQLNRGPESRTDKRPQLADLRESGSLEQDADMVMLLYRPDSQDKDDeRAGEADIILAKHRGGPIDT 487

                        250
                 ....*....|....*.
gi 143295099 240 ITVASLLHFAKFADMA 255
Cdd:PRK05636 488 VQVAHQLHYSRFVDMA 503
DnaB_C cd00984
C-terminal domain of DnaB helicase; DnaB helicase C-terminal domain. The hexameric helicase ...
 1-253 1.12e-140

C-terminal domain of DnaB helicase; DnaB helicase C-terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.


Pssm-ID: 410864 [Multi-domain]  Cd Length: 256  Bit Score: 395.34  E-value: 1.12e-140
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:cd00984    2 LPTGFTDLDKLTGGLQPGDLIIIAARPSMGKTAFALNIAENIALDEGLPVLFFSLEMSAEQLAERLLSSESGVSLSKLRT 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:cd00984   82 GRLDDEDWERLTAAMGELSELPLYIDDTPGLTVDEIRAKARRLKREHgGLGLIVIDYLQLIRGSKRAENRQQEVAEISRS 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTK 238
Cdd:cd00984  162 LKALAKELNVPVIALSQLNRGVESRTDKRPMLSDLRESGSIEQDADVVIFLYRDEYYDKDSeDKGIAEIIIAKNRNGPTG 241

                        250
                 ....*....|....*
gi 143295099 239 IITVASLLHFAKFAD 253
Cdd:cd00984  242 TVYLAFNPEYTRFTD 256
 
Name Accession Description Interval E-value
DnaB_C pfam03796
DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at ...
 1-253 7.66e-163

DnaB-like helicase C terminal domain; The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.


Pssm-ID: 427509 [Multi-domain]  Cd Length: 254  Bit Score: 451.48  E-value: 7.66e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099    1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:pfam03796   2 LPTGFTDLDRLTGGLQPGDLIIIAARPSMGKTAFALNIARNAAVKHKKPVAIFSLEMSAEQLVMRLLASEAGVDSQKLRT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:pfam03796  82 GQLTDEDWEKLAKAAGRLSEAPLYIDDTPGLSIAEIRAKARRLKREHGLGLIVIDYLQLMSGGSRGENRQQEISEISRSL 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGEADLNVAKHRNGPTKII 240
Cdd:pfam03796 162 KALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGAIEQDADVVMFLYRDEYYNPKEPEGKAEIIIAKQRNGPTGTV 241

                         250
                  ....*....|...
gi 143295099  241 TVASLLHFAKFAD 253
Cdd:pfam03796 242 KLAFLGEYTRFEN 254
DnaB TIGR00665
replicative DNA helicase; This model describes the helicase DnaB, a homohexameric protein ...
 1-255 1.07e-159

replicative DNA helicase; This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of > 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273206 [Multi-domain]  Cd Length: 432  Bit Score: 450.34  E-value: 1.07e-159
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099    1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:TIGR00665 177 VPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSAEQLVMRMLSSESRVDSQKLRT 256

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:TIGR00665 257 GRLSDEDWEKLTEAAGELSEAPLYIDDTPGLTITELRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEVSEISRSL 336

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD-SQNRSGEADLNVAKHRNGPTKI 239
Cdd:TIGR00665 337 KALAKELNVPVIALSQLSRSVEQREDKRPQLSDLRESGSIEQDADIVMFLYRDEYYNpDSEDKGIAEIIIAKQRNGPTGT 416

                         250
                  ....*....|....*.
gi 143295099  240 ITVASLLHFAKFADMA 255
Cdd:TIGR00665 417 VKLAFLGEYTRFENLA 432
DnaB COG0305
Replicative DNA helicase [Replication, recombination and repair];
1-255 2.11e-157

Replicative DNA helicase [Replication, recombination and repair];


Pssm-ID: 440074 [Multi-domain]  Cd Length: 429  Bit Score: 444.52  E-value: 2.11e-157
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:COG0305  174 VPTGFTDLDKLTGGLQPGDLIILAARPSMGKTAFALNIARNAAIKEGKPVAIFSLEMSAEQLVMRLLSSEARIDSSKLRT 253

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:COG0305  254 GKLSDEDWERLSSAAGELSEAPIYIDDTPGLTIAEIRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEISEISRSL 333

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTKI 239
Cdd:COG0305  334 KALAKELNVPVIALSQLSRAVEQRTDKRPQLSDLRESGSIEQDADVVMFLYRDEYYNPDSeDKGIAEIIIAKQRNGPTGT 413

                        250
                 ....*....|....*.
gi 143295099 240 ITVASLLHFAKFADMA 255
Cdd:COG0305  414 VKLAFDGEYTRFENLA 429
PRK05636 PRK05636
replicative DNA helicase; Provisional
 1-255 1.73e-143

replicative DNA helicase; Provisional


Pssm-ID: 180177 [Multi-domain]  Cd Length: 505  Bit Score: 411.93  E-value: 1.73e-143
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK05636 248 IPTGFKDLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLEMSKSEIVMRLLSAEAEVRLSDMRG 327

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK05636 328 GKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQKHDLKLIVVDYLQLMSSGKRVESRQQEVSEFSRQL 407

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTKI 239
Cdd:PRK05636 408 KLLAKELDVPLIAISQLNRGPESRTDKRPQLADLRESGSLEQDADMVMLLYRPDSQDKDDeRAGEADIILAKHRGGPIDT 487

                        250
                 ....*....|....*.
gi 143295099 240 ITVASLLHFAKFADMA 255
Cdd:PRK05636 488 VQVAHQLHYSRFVDMA 503
DnaB_C cd00984
C-terminal domain of DnaB helicase; DnaB helicase C-terminal domain. The hexameric helicase ...
 1-253 1.12e-140

C-terminal domain of DnaB helicase; DnaB helicase C-terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.


Pssm-ID: 410864 [Multi-domain]  Cd Length: 256  Bit Score: 395.34  E-value: 1.12e-140
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:cd00984    2 LPTGFTDLDKLTGGLQPGDLIIIAARPSMGKTAFALNIAENIALDEGLPVLFFSLEMSAEQLAERLLSSESGVSLSKLRT 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:cd00984   82 GRLDDEDWERLTAAMGELSELPLYIDDTPGLTVDEIRAKARRLKREHgGLGLIVIDYLQLIRGSKRAENRQQEVAEISRS 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTK 238
Cdd:cd00984  162 LKALAKELNVPVIALSQLNRGVESRTDKRPMLSDLRESGSIEQDADVVIFLYRDEYYDKDSeDKGIAEIIIAKNRNGPTG 241

                        250
                 ....*....|....*
gi 143295099 239 IITVASLLHFAKFAD 253
Cdd:cd00984  242 TVYLAFNPEYTRFTD 256
PRK07773 PRK07773
replicative DNA helicase; Validated
 1-210 2.57e-120

replicative DNA helicase; Validated


Pssm-ID: 236093 [Multi-domain]  Cd Length: 886  Bit Score: 364.07  E-value: 2.57e-120
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK07773 200 VPTGFTELDAMTNGLHPGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLEMSKEQLVMRLLSAEAKIKLSDMRS 279

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK07773 280 GRMSDDDWTRLARAMGEISEAPIFIDDTPNLTVMEIRAKARRLRQEANLGLIVVDYLQLMTSGKKYENRQQEVSEISRHL 359

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEqdADVVILL 210
Cdd:PRK07773 360 KLLAKELEVPVVALSQLSRGVEQRTDKRPMLSDLRESGCLT--GDTLILR 407
PRK05748 PRK05748
replicative DNA helicase; Provisional
 1-258 5.58e-118

replicative DNA helicase; Provisional


Pssm-ID: 180232 [Multi-domain]  Cd Length: 448  Bit Score: 345.02  E-value: 5.58e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK05748 186 IPTGFTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAESLVMRMLCAEGNIDAQRLRT 265

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMT-SGKKVENRQQEVSEFSR 158
Cdd:PRK05748 266 GQLTDDDWPKLTIAMGSLSDAPIYIDDTPGIKVTEIRARCRRLAQEHgGLGLILIDYLQLIQgSGRSGENRQQEVSEISR 345

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 159 QLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD--SQNRsGEADLNVAKHRNGP 236
Cdd:PRK05748 346 SLKALAKELKVPVIALSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIVAFLYRDDYYDeeTENK-NTIEIIIAKQRNGP 424

                        250       260
                 ....*....|....*....|..
gi 143295099 237 TKIITVASLLHFAKFADMAPKY 258
Cdd:PRK05748 425 VGTVELAFQKEYNKFVNLARRE 446
PRK05595 PRK05595
replicative DNA helicase; Provisional
 1-256 3.88e-101

replicative DNA helicase; Provisional


Pssm-ID: 235525 [Multi-domain]  Cd Length: 444  Bit Score: 302.13  E-value: 3.88e-101
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK05595 184 VASGFRELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEMSKEQLAYKLLCSEANVDMLRLRT 263

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK05595 264 GNLEDKDWENIARASGPLAAAKIFIDDTAGVSVMEMRSKCRRLKIEHGIDMILIDYLQLMSGGKGSESRQQEVSEISRSI 343

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNR-SGEADLNVAKHRNGPTKI 239
Cdd:PRK05595 344 KALAKEMECPVIALSQLSRAPEQRADHRPMLSDLRESGSIEQDADVVMFLYRDEYYNKETEdKNVAECIIAKQRNGPTGT 423

                        250
                 ....*....|....*..
gi 143295099 240 ITVASLLHFAKFADMAP 256
Cdd:PRK05595 424 VKLAWLGQYSKFGNLDV 440
PRK09165 PRK09165
replicative DNA helicase; Provisional
 1-263 4.59e-100

replicative DNA helicase; Provisional


Pssm-ID: 181676 [Multi-domain]  Cd Length: 497  Bit Score: 301.03  E-value: 4.59e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAA--------------IHNGECSVIFSLEMSRSEITMRM 66
Cdd:PRK09165 200 ISTGLRDLDSKLGGLHPSDLIILAGRPSMGKTALATNIAFNAAkayrreaqpdgskkAVNGGVVGFFSLEMSAEQLATRI 279

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  67 LSAEARVALNNIRSGSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKV 146
Cdd:PRK09165 280 LSEQSEISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPALSISQLRARARRLKRQHGLDLLVVDYLQLIRGSSKR 359

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 147 --ENRQQEVSEFSRQLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLY-------- 216
Cdd:PRK09165 360 ssDNRVQEISEITQGLKALAKELNIPVIALSQLSRQVEQRDDKRPQLSDLRESGSIEQDADVVMFVYREEYYlkrkepre 439

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 143295099 217 ---------DSQNR-SGEADLNVAKHRNGPTKIITVASLLHFAKFADMAPKYTTPQE 263
Cdd:PRK09165 440 gtpkheewqEKMEKvHNKAEVIIAKQRHGPTGTVKLAFESEFTRFGDLADRSQLPEE 496
PRK08506 PRK08506
replicative DNA helicase; Provisional
 1-259 4.94e-97

replicative DNA helicase; Provisional


Pssm-ID: 236278 [Multi-domain]  Cd Length: 472  Bit Score: 292.30  E-value: 4.94e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAaIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK08506 175 LDTGFVELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKA-LNQDKGVAFFSLEMPAEQLMLRMLSAKTSIPLQNLRT 253

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:PRK08506 254 GDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRAQLRKLKSQHpEIGLAVIDYLQLMSGSGNFKDRHLQISEISRG 333

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLY----------------------D 217
Cdd:PRK08506 334 LKLLARELDIPIIALSQLNRSLESRADKRPMLSDLRESGAIEQDADIILFVYRDDVYkereekekekkakkegkeerriH 413

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 143295099 218 SQNRSGE-ADLNVAKHRNGPTKIITVASLLHFAKFADMAPKYT 259
Cdd:PRK08506 414 FQNKSIEeAEIIIGKNRNGPTGTVKLRFQKEFTRFVDKPIESH 456
phage_DnaB TIGR03600
phage replicative helicase, DnaB family, HK022 subfamily; Members of this family are phage (or ...
 1-237 2.44e-94

phage replicative helicase, DnaB family, HK022 subfamily; Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 274672 [Multi-domain]  Cd Length: 420  Bit Score: 283.91  E-value: 2.44e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099    1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:TIGR03600 176 LSTGLPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSAEQLGERLLASKSGINTGNIRT 255

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHD-LKLVVIDYLQLMTSGKKvENRQQEVSEFSRQ 159
Cdd:TIGR03600 256 GRFNDSEFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRSIARRIKRKKGgLDLIVVDYIQLMAPARG-RDRNEELGGISRG 334

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 143295099  160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD-SQNRSGEADLNVAKHRNGPT 237
Cdd:TIGR03600 335 LKALAKELDVPVVLLAQLNRGSEKRTDKRPIMSDLRDSGAIEQDADVIGLIHREGYYDaREPPAGIAELILAKNRHGPT 413
PRK08760 PRK08760
replicative DNA helicase; Provisional
 1-255 3.00e-90

replicative DNA helicase; Provisional


Pssm-ID: 181547 [Multi-domain]  Cd Length: 476  Bit Score: 275.26  E-value: 3.00e-90
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK08760 212 LPTGYNDFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSASQLAMRLISSNGRINAQRLRT 291

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQL 160
Cdd:PRK08760 292 GALEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKREHDLGLIVIDYLQLMSVPGNSENRATEISEISRSL 371

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 161 KLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRS--GEADLNVAKHRNGPTK 238
Cdd:PRK08760 372 KGLAKELNVPVIALSQLNRSLETRTDKRPVMADLRESGAIEQDADMIVFIYRDDYYNKENSPdkGLAEIIIGKHRGGPTG 451

                        250
                 ....*....|....*..
gi 143295099 239 IITVASLLHFAKFADMA 255
Cdd:PRK08760 452 SCKLKFFGEYTRFDNLA 468
PRK07004 PRK07004
replicative DNA helicase; Provisional
 1-256 2.75e-88

replicative DNA helicase; Provisional


Pssm-ID: 235907 [Multi-domain]  Cd Length: 460  Bit Score: 269.86  E-value: 2.75e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK07004 196 TPTGFVDLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSMEMPGTQLAMRMLGSVGRLDQHRMRT 275

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRL-KQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:PRK07004 276 GRLTDEDWPKLTHAVQKMSEAQLFIDETGGLNPMELRSRARRLaRQCGKLGLIIIDYLQLMSGSSQGENRATEISEISRS 355

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 160 LKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLY--DSQNRsGEADLNVAKHRNGPT 237
Cdd:PRK07004 356 LKSLAKELDVPVIALSQLNRGLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYnpDSPDK-GTAEIIIGKQRNGPI 434

                        250
                 ....*....|....*....
gi 143295099 238 KIITVASLLHFAKFADMAP 256
Cdd:PRK07004 435 GPVRLTFLGQYTKFDNFAG 453
PRK08840 PRK08840
replicative DNA helicase; Provisional
 1-255 5.25e-81

replicative DNA helicase; Provisional


Pssm-ID: 181562 [Multi-domain]  Cd Length: 464  Bit Score: 251.06  E-value: 5.25e-81
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK08840 200 VDTGFTDLNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMPAEQLMMRMLASLSRVDQTKIRT 279

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAP-LFIDDSPNLSMMEIRAKARRLKQRHD-LKLVVIDYLQLMTSGKKVENRQQEVSEFSR 158
Cdd:PRK08840 280 GQLDDEDWARISSTMGILMEKKnMYIDDSSGLTPTEVRSRARRIAREHGgLSMIMVDYLQLMRVPALSDNRTLEIAEISR 359

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 159 QLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQ-NRSGEADLNVAKHRNGPT 237
Cdd:PRK08840 360 SLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYNPDsPLKGTAEIIIGKQRNGPI 439

                        250
                 ....*....|....*...
gi 143295099 238 KIITVASLLHFAKFADMA 255
Cdd:PRK08840 440 GSVRLTFQGQYSRFDNYA 457
PRK06321 PRK06321
replicative DNA helicase; Provisional
 1-256 1.08e-79

replicative DNA helicase; Provisional


Pssm-ID: 180528 [Multi-domain]  Cd Length: 472  Bit Score: 247.83  E-value: 1.08e-79
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK06321 209 IPTHFIDLDKMINGFSPSNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMTVDQLIHRIICSRSEVESKKISV 288

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSG---KKVENRQQEVSEFS 157
Cdd:PRK06321 289 GDLSGRDFQRIVSVVNEMQEHTLLIDDQPGLKITDLRARARRMKESYDIQFLIIDYLQLLSGSgnlRNSESRQTEISEIS 368

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 158 RQLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGEADLNVAKHRNGPT 237
Cdd:PRK06321 369 RMLKNLARELNIPILCLSQLSRKVEDRANHRPMMSDLRESGSIEQDSDLVMFLLRREYYDPNDKPGTAELIVAKNRHGSI 448

                        250
                 ....*....|....*....
gi 143295099 238 KIITVASLLHFAKFADMAP 256
Cdd:PRK06321 449 GSVPLVFEKEFARFRNYAA 467
PRK08006 PRK08006
replicative DNA helicase DnaB;
1-258 3.36e-79

replicative DNA helicase DnaB;


Pssm-ID: 181193 [Multi-domain]  Cd Length: 471  Bit Score: 246.84  E-value: 3.36e-79
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK08006 207 VNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMPGEQIMMRMLASLSRVDQTRIRT 286

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDDEWSKLARRMG-EINDAPLFIDDSPNLSMMEIRAKARRLKQRHD-LKLVVIDYLQLMTSGKKVENRQQEVSEFSR 158
Cdd:PRK08006 287 GQLDDEDWARISGTMGiLLEKRNMYIDDSSGLTPTEVRSRARRIFREHGgLSLIMIDYLQLMRVPSLSDNRTLEIAEISR 366

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 159 QLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLY-DSQNRSGEADLNVAKHRNGPT 237
Cdd:PRK08006 367 SLKALAKELQVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYhENSDLKGIAEIIIGKQRNGPI 446

                        250       260
                 ....*....|....*....|..
gi 143295099 238 KIITVASLLHFAKFADMA-PKY 258
Cdd:PRK08006 447 GTVRLTFNGQWSRFDNYAgPQY 468
PRK06904 PRK06904
replicative DNA helicase; Validated
 1-255 1.60e-77

replicative DNA helicase; Validated


Pssm-ID: 136106 [Multi-domain]  Cd Length: 472  Bit Score: 242.59  E-value: 1.60e-77
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK06904 204 VTTGFTDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEMPAEQIMMRMLASLSRVDQTKIRT 283

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GSLSDD-EWSKLARRMGEINDAP-LFIDDSPNLSMMEIRAKARRL-KQRHDLKLVVIDYLQLMTSGKKVENRQQEVSEFS 157
Cdd:PRK06904 284 GQNLDQqDWAKISSTVGMFKQKPnLYIDDSSGLTPTELRSRARRVyRENGGLSLIMVDYLQLMRAPGFEDNRTLEIAEIS 363

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 158 RQLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYD--SQNRSGEADLNVAKHRNG 235
Cdd:PRK06904 364 RSLKALAKELKVPVVALSQLNRTLENRGDKRPVNSDLRESGSIEQDADLIMFIYRDEVYNetTEDNKGVAEIIIGKQRNG 443

                        250       260
                 ....*....|....*....|
gi 143295099 236 PTKIITVASLLHFAKFADMA 255
Cdd:PRK06904 444 PIGRVRLAFQGQYSRFDNLA 463
PRK06749 PRK06749
replicative DNA helicase; Provisional
 1-254 5.18e-76

replicative DNA helicase; Provisional


Pssm-ID: 168658 [Multi-domain]  Cd Length: 428  Bit Score: 237.15  E-value: 5.18e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAiHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRS 80
Cdd:PRK06749 169 IETGYTSLNKMTCGLQEGDFVVLGARPSMGKTAFALNVGLHAA-KSGAAVGLFSLEMSSKQLLKRMASCVGEVSGGRLKN 247

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 GS--LSDDEWSKLARRMGEINDAPLFIDDSPNLSMMEIRAKARRLKQRHDLK--LVVIDYLQLMTSGKKVE-NRQQEVSE 155
Cdd:PRK06749 248 PKhrFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKRKHGDKkiLIIVDYLQLITGDPKHKgNRFQEISE 327

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 156 FSRQLKLLAKELNVPVVAISQLNRSPEQRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGE-ADLNVAKHRN 234
Cdd:PRK06749 328 ISRKLKLLARELNVCVVALSQLSRSVESRQDKRPLLSDLRETGQIEQDADVIMLMYREDYYDKETMQKEmTEIHVAKHRN 407

                        250       260
                 ....*....|....*....|
gi 143295099 235 GPTKIITVASLLHFAKFADM 254
Cdd:PRK06749 408 GPVGSFKLRFLKEFGRFVEG 427
RecA-like_Gp4D_helicase cd19483
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the ...
 21-222 1.23e-20

RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the RecA-like domain of the Gp4D fragment of the Gene4 helicase-primase (Gp4) from bacteriophage T7. Gp4D (residues 241-566) is the minimal fragment of the Gp4 that forms hexameric rings, it contains the helicase domain and the linker connecting the helicase and primase domains. Helicases are ring-shaped oligomeric enzymes that unwind DNA at the replication fork; they couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands. This family belongs to the RecA-like NTPase superfamily 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: 410891 [Multi-domain]  Cd Length: 231  Bit Score: 87.63  E-value: 1.23e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  21 IVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRSGSLSDDEWSKLARRMGEIND 100
Cdd:cd19483    1 VTIGAGSGIGKSTIVRELAYHLITEHGEKVGIISLEESVEETAKGLAGKHLGKPEPLELPRDDITEEEEDDAFDNELGSG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 101 APLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSG--KKVENRQQEvsEFSRQLKLLAKELNVPVVAISQLN 178
Cdd:cd19483   81 RFFLYDHFGSLDWDNLKEKIRYMVKVLGCKVIVLDHLTILVSGldSSDERKELD--EIMTELAALVKELGVTIILVSHLR 158

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 143295099 179 RsPEQRAD----KKPLLSDLRESGSIEQDADVVILLHRD---DLYDSQNRS 222
Cdd:cd19483  159 R-PGGGKGheegGEVSESDLRGSSAIAQLSDYVIGLERNkqaDDPVERNTT 208
PRK07773 PRK07773
replicative DNA helicase; Validated
 199-255 3.23e-20

replicative DNA helicase; Validated


Pssm-ID: 236093 [Multi-domain]  Cd Length: 886  Bit Score: 89.81  E-value: 3.23e-20
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 143295099 199 SIEQDADVVILLHRDDLYDSQN-RSGEADLNVAKHRNGPTKIITVASLLHFAKFADMA 255
Cdd:PRK07773 827 SIEQDADVVILLYRPDYYDRDDpRGGEAEFIVAKHRNGPTGTVTLAFQLHLSRFANLA 884
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
1-236 1.95e-17

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 78.80  E-value: 1.95e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTN-GFHPGNMIVIAARPAVGKSTLGLDIARNAAiHNGECSVIFSLEMSRSEITMRMLSAEARVAlNNIR 79
Cdd:COG0467    2 VPTGIPGLDELLGgGLPRGSSTLLSGPPGTGKTTLALQFLAEGL-RRGEKGLYVSFEESPEQLLRRAESLGLDLE-EYIE 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  80 SGSLSddewsklarrmgeindaplFIDDSP---NLSMMEIRAKARRLKQRHDLKLVVID----YLQLMTSgkkvenrQQE 152
Cdd:COG0467   80 SGLLR-------------------IIDLSPeelGLDLEELLARLREAVEEFGAKRVVIDslsgLLLALPD-------PER 133

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 153 VSEFSRQLKLLAKELNVPVVAISQlnrspeqradkKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSgeadLNVAKH 232
Cdd:COG0467  134 LREFLHRLLRYLKKRGVTTLLTSE-----------TGGLEDEATEGGLSYLADGVILLRYVELGGELRRA----LSVLKM 198


                 ....
gi 143295099 233 RNGP 236
Cdd:COG0467  199 RGSA 202
PRK05973 PRK05973
replicative DNA helicase; Provisional
 15-195 6.73e-16

replicative DNA helicase; Provisional


Pssm-ID: 168322 [Multi-domain]  Cd Length: 237  Bit Score: 74.69  E-value: 6.73e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  15 FHPGNMIVIAARPAVGKSTLGLDIARnAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNnirsgslsddewsklarr 94
Cdd:PRK05973  61 LKPGDLVLLGARPGHGKTLLGLELAV-EAMKSGRTGVFFTLEYTEQDVRDRLRALGADRAQF------------------ 121

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  95 mgeindAPLFIDDSPNlsmmEIRAK--ARRLKQRHDLKLVVIDYLQLMTsgkkvENRQQ-EVSEFSRQLKLLAKELNVPV 171
Cdd:PRK05973 122 ------ADLFEFDTSD----AICADyiIARLASAPRGTLVVIDYLQLLD-----QRREKpDLSVQVRALKSFARERGLII 186

                        170       180
                 ....*....|....*....|....
gi 143295099 172 VAISQLNRSPEQRADKKPLLSDLR 195
Cdd:PRK05973 187 VFISQIDRSFDPSAKPLPDIRDVR 210
RepA COG3598
RecA-family ATPase [Replication, recombination and repair];
18-237 1.66e-12

RecA-family ATPase [Replication, recombination and repair];


Pssm-ID: 442817 [Multi-domain]  Cd Length: 313  Bit Score: 66.08  E-value: 1.66e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  18 GNMIVIAARPAVGKSTLGLDIArnAAIHNGE---------CSVIF-SLEMSRSEITMRMLSAEARValnnirsgslsDDE 87
Cdd:COG3598   13 GGVTLLAGPPGTGKSFLALQLA--AAVAAGGpwlgrrvppGKVLYlAAEDDRGELRRRLKALGADL-----------GLP 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  88 WSKLARRMGEINDAPLFIDDSpnlSMMEIRAKARrlkqRHDLKLVVIDYLQLMTSGKkvENRQQEVSEFSRQLKLLAKEL 167
Cdd:COG3598   80 FADLDGRLRLLSLAGDLDDTD---DLEALERAIE----EEGPDLVVIDPLARVFGGD--ENDAEEMRAFLNPLDRLAERT 150

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 168 NVPVVAISQLNRSpeqrADKKPLLSDLRESGSIEQDADVVILLHRDDlyDSQNRSgeadLNVAKHRNGPT 237
Cdd:COG3598  151 GAAVLLVHHTGKG----GAGKDSGDRARGSSALRGAARSVLVLSREK--GEDLRV----LTRAKSNYGPE 210
AAA_25 pfam13481
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.
 21-182 5.82e-12

AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.


Pssm-ID: 463892 [Multi-domain]  Cd Length: 193  Bit Score: 63.17  E-value: 5.82e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   21 IVIAARPAVGKSTLGLD----IARNAAIHNGECS------VIFSLEMSRSEITMRMLSAEARvalnnirsgsLSDDEWSK 90
Cdd:pfam13481  36 GLLAGAPGTGKTTLALDlaaaVATGKPWLGGPRVpeqgkvLYVSAEGPADELRRRLRAAGAD----------LDLPARLL 105

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   91 LARRMGEIndaPLFIDDSPNLSMME-IRAKARRLKQRHDLKLVVIDYLQLMTSGkkVENRQQEVSEFSRQLKLLAKELNV 169
Cdd:pfam13481 106 FLSLVESL---PLFFLDRGGPLLDAdVDALEAALEEVEDPDLVVIDPLARALGG--DENSNSDVGRLVKALDRLARRTGA 180

                         170
                  ....*....|...
gi 143295099  170 PVVAISQLNRSPE 182
Cdd:pfam13481 181 TVLLVHHVGKDGA 193
KaiC-like cd01124
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ...
 1-236 6.96e-11

Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410869 [Multi-domain]  Cd Length: 222  Bit Score: 60.36  E-value: 6.96e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTN-GFHPGNMIVIAARPAVGKSTLGLDIARNAAIhNGECSVIFSLEMSRSEITMRMLSAearvalnnir 79
Cdd:cd01124    1 VKTGIPGLDELLGgGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAK-NGEPGLFFTFEESPERLLRNAKSF---------- 69

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  80 sgslsddEWSKlarRMGEINDApLFIDDSPNLSMM-----EIRAKARRLKQRHDLKLVVIDYLQLMTSGKKVENRQQevs 154
Cdd:cd01124   70 -------GWDF---DEMEDEGK-LIIVDAPPTEAGrfsldELLSRILSIIKSFKAKRVVIDSLSGLRRAKEDQMRAR--- 135

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 155 EFSRQLKLLAKELNVPVVAISQLNRSPEQRAdkkpllsdlRESGSIEQDADVVILLHRDDLYDSQNRSgeadLNVAKHRN 234
Cdd:cd01124  136 RIVIALLNELRAAGVTTIFTSEMRSFLSSES---------AGGGDVSFIVDGVILLRYVEIEGELRRT----IRVLKMRG 202


                 ..
gi 143295099 235 GP 236
Cdd:cd01124  203 TG 204
RadA_SMS_N cd01121
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ...
 1-172 5.54e-07

bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a role in recombination and recombinational repair of DNA damaged by UV radiation, X-rays, and chemical agent and is responsible for the stabilization or processing of branched DNA molecules.


Pssm-ID: 410866 [Multi-domain]  Cd Length: 268  Bit Score: 49.45  E-value: 5.54e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLD-SLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIfSLEMSRSEITMRmlsaearvalnnir 79
Cdd:cd01121   64 ISTGIGELDrVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAQRGGKVLYV-SGEESLSQIKLR-------------- 128

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  80 sgslsddewsklARRMGeINDAPLFIddSPNLSMMEIRAKARRLKqrhdLKLVVIDYLQLMTSgKKVENRQQEVS---EF 156
Cdd:cd01121  129 ------------AERLG-LGSDNLYL--LAETNLEAILAEIEELK----PSLVVIDSIQTVYS-PELTSSPGSVSqvrEC 188

                        170
                 ....*....|....*.
gi 143295099 157 SRQLKLLAKELNVPVV 172
Cdd:cd01121  189 AAELLRLAKETGIPVF 204
KaiC-like_C cd19487
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 1-129 1.66e-06

C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410895 [Multi-domain]  Cd Length: 219  Bit Score: 47.68  E-value: 1.66e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTNG-FHPGNMIVIAARPAVGKSTLGLDIARnAAIHNGECSVIFSLEMS------RSE---ITMRMLSAE 70
Cdd:cd19487    1 VSSGVPELDELLGGgLERGTSTLLIGPAGVGKSTLALQFAK-AAAARGERSVLFSFDESigtlfeRSEalgIDLRAMVEK 79

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 143295099  71 ARVALNNIRSGSLSDDEWSKLARRMGEINDAPLFIDDSPN---LSMMEIRAKARrlkQRHDL 129
Cdd:cd19487   80 GLLSIEQIDPAELSPGEFAQRVRTSVEQEDARVVVIDSLNgylNAMPDERFLIL---QMHEL 138
41 PHA02542
41 helicase; Provisional
 22-205 2.44e-06

41 helicase; Provisional


Pssm-ID: 222864 [Multi-domain]  Cd Length: 473  Bit Score: 48.13  E-value: 2.44e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  22 VIAARPAVGKStLGLDIARNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRsgslsDDEWSKLARRMGEI--- 98
Cdd:PHA02542 194 VLLAGVNVGKS-LGLCSLAADYLQQGYNVLYISMEMAEEVIAKRIDANLLDVSLDDID-----DLSKAEYKAKMEKLrsk 267

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  99 NDAPLFIDDSPNLSMM--EIRAKARRLKQRHDLK--LVVIDYLQLMTSGK---KVENRQQEVSEFSRQLKLLAKELNVPV 171
Cdd:PHA02542 268 TQGKLIIKQYPTGGAHagHFRALLNELKLKKNFKpdVIIVDYLGICASSRlrvSSENSYTYVKAIAEELRGLAVEHDVVV 347

                        170       180       190
                 ....*....|....*....|....*....|....
gi 143295099 172 VAISQLNRSPEQRADkkPLLSDLRESGSIEQDAD 205
Cdd:PHA02542 348 WTAAQTTRSGWDSSD--VDMSDTAESAGLPATAD 379
RepA_RSF1010_like cd01125
Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family ...
 22-228 2.16e-05

Hexameric Replicative Helicase RepA of plasmid RSF1010 and related proteins; This family includes the homo-hexameric replicative helicase RepA encoded by plasmid RSF1010. RSF1010 is found in most Gram-negative bacteria and some Gram-positive bacteria . The RepA protein of Plasmid RSF1010 is a 5'-3' DNA helicase which can utilize ATP, dATP, GTP and dGTP (and CTP and dCTP to a lesser extent).


Pssm-ID: 410870  Cd Length: 238  Bit Score: 44.68  E-value: 2.16e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  22 VIAARPAVGKSTLGLDIA---------RNAAIHNGECSVIFSLEMSRSEITMRMLSAEARVALNNIRsgslsddewsklA 92
Cdd:cd01125    5 MLVGPPGSGKSFLALDLAvavatgrdwLGERRVKQGRVVYLAAEDPRDGLRRRLKAIGAHLGDEDAA------------L 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  93 RRMGEINDAPLFiddspNLSMMEIRAKARRLKQRH-DLKLVVIDYLQLMTSGkKVENRQQEVSEFSRQLKLLAKELNVPV 171
Cdd:cd01125   73 AENLVIENLRGK-----PVSIDAEAPELERIIEELeGVRLIIIDTLARVLHG-GDENDAADMGAFVAGLDRIARETGAAV 146

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 143295099 172 VAISQLNrspeqRADKKPLLSDLRESGSIEQDADVVILLHRDDLYDSQNRSGEADLN 228
Cdd:cd01125  147 LLVHHTG-----KDAAGDSQQAARGSSALRGAADAEINLSKMDATEAEKVGLDKDLR 198
PRK09302 PRK09302
circadian clock protein KaiC; Reviewed
 1-68 4.99e-05

circadian clock protein KaiC; Reviewed


Pssm-ID: 236461 [Multi-domain]  Cd Length: 509  Bit Score: 44.10  E-value: 4.99e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 143295099   1 IKTGFKDLDS-LTNGFHPGNMIVIAARPAVGKSTLGLDIArNAAIHNGECSVIFSLEMSRSEITMRMLS 68
Cdd:PRK09302 255 ISSGVPDLDEmLGGGFFRGSIILVSGATGTGKTLLASKFA-EAACRRGERCLLFAFEESRAQLIRNARS 322
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 9-181 6.09e-05

RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410901 [Multi-domain]  Cd Length: 222  Bit Score: 43.08  E-value: 6.09e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   9 DSLTNGFHPGNMIVIAARPAVGKSTLGLDIARNAAIHNGECS-----VIFSLEMSRSEITMRmLSAEARVALNNIRSGSL 83
Cdd:cd19493    2 TALAGGLPLGAITEITGASGSGKTQFALTLASSAAMPARKGGldggvLYIDTESKFSAERLA-EIAEARFPEAFSGFMEE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  84 SDDEwSKLARRMG--EINDAPLFIDDSPNL--SMMEirakarrlkqrHDLKLVVIDYLQLM------TSGKKVENRQQEV 153
Cdd:cd19493   81 NERA-EEMLKRVAvvRVTTLAQLLERLPNLeeHILS-----------SGVRLVVIDSIAALvrrefgGSDGEVTERHNAL 148

                        170       180
                 ....*....|....*....|....*...
gi 143295099 154 SEFSRQLKLLAKELNVPVVAISQLNRSP 181
Cdd:cd19493  149 AREASSLKRLAEEFRIAVLVTNQATTHF 176
KaiC_C cd19484
C-terminal domain of Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most ...
 1-68 1.11e-04

C-terminal domain of Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410892 [Multi-domain]  Cd Length: 218  Bit Score: 42.31  E-value: 1.11e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDSLTN--GFHPGNMIVIAARPAVGKSTLGLDIArNAAIHNGECSVIFSLEMSRSEITMRMLS 68
Cdd:cd19484    1 ISTGIPRLDAMLGggGFFRGSSILVSGATGTGKTLLAASFA-DAACRRGERCLYFAFEESPAQLIRNAKS 69
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 18-177 4.20e-04

RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs RadA and RadB.


Pssm-ID: 410881 [Multi-domain]  Cd Length: 185  Bit Score: 40.41  E-value: 4.20e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  18 GNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVI---FSLEMSRSEitmRMLSA------EARVALNNIRSGSLSDDEW 88
Cdd:cd01393    1 GKITEIYGPPGSGKTQLALQLAANALLLGGGVVWIdteGAFPPSRLV---QILEAspsselELAEALSRLLYFRPPDTLA 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  89 SKLArrmgeINDAPLFIDDSPNLSmmeirakarrlkqrhdlkLVVID---------YLQLMTSGKKVENRQQEVSEFSRQ 159
Cdd:cd01393   78 HLLA-----LDSLPESLFPPPNTS------------------LVVVDsvsalfrkaFPRGGDGDSSSSLRARLLSQLARA 134

                        170
                 ....*....|....*...
gi 143295099 160 LKLLAKELNVPVVAISQL 177
Cdd:cd01393  135 LQKLAAQFNLAVVVTNQV 152
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 116-201 1.62e-03

RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410865 [Multi-domain]  Cd Length: 119  Bit Score: 37.48  E-value: 1.62e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 116 IRAKARRLKQRHDLKLVVIDYLQLMtSGKKVENRQQEVSEFSRQLKLLAKELNVPVVAISQlnrSPEQRADKKPLLSDLR 195
Cdd:cd01120   38 ILEAIEDLIEEKKLDIIIIDSLSSL-ARASQGDRSSELLEDLAKLLRAARNTGITVIATIH---SDKFDIDRGGSSNDER 113


                 ....*.
gi 143295099 196 ESGSIE 201
Cdd:cd01120  114 LLKSLR 119
KaiC-like_N cd19488
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 1-233 2.44e-03

N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410896 [Multi-domain]  Cd Length: 225  Bit Score: 38.48  E-value: 2.44e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   1 IKTGFKDLDS-LTNGFHPGNMIVIAARPAVGKSTLGLDIARnAAIHNGECSVIFSLEMSRSEItmRMLSAEARVALNNIR 79
Cdd:cd19488    1 ISTGIPGLDDiLRGGLPPRRLYLVEGAPGTGKTTLALQFLL-EGAANGETGLYITLSETEQEL--RAVALSHGWSLDGIH 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  80 SGSLSDDEwSKLArrmgeiNDAPLFIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQlmtsgkkvENRQ--QEVSEFS 157
Cdd:cd19488   78 IFELSPSE-SALD------AAQQYTILHPSELELSETTRLIFERVERLKPSRVVIDSLS--------ELRLlaQDSLRYR 142

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 158 RQlkllakelnvpVVAISQLnrspEQRADKKPLLSDLRESGSIEQD----ADVVILL-HRDDLYDSQNRSgeadLNVAKH 232
Cdd:cd19488  143 RQ-----------ILALKQF----FAGRNTTVLLLDDLTSDAADLDlhsiAHGVIRLeQLESDYGAARRR----LRVSKM 203


                 .
gi 143295099 233 R 233
Cdd:cd19488  204 R 204
Twinkle_C cd01122
C-terminal domain of Twinkle; Twinkle ( T7 gp4-like protein with intramitochondrial nucleoid ...
 5-233 7.80e-03

C-terminal domain of Twinkle; Twinkle ( T7 gp4-like protein with intramitochondrial nucleoid localization, also known as C10orf2, PEO1, SCA8, ATXN8, IOSCA, PEOA3 or SANDO) is a homohexameric DNA helicases which unwinds short stretches of double-stranded DNA in the 5' to 3' direction and, along with mitochondrial single-stranded DNA binding protein and mtDNA polymerase gamma, is thought to play a key role in mtDNA replication. Mutations in the human gene cause infantile onset spinocerebellar ataxia (IOSCA) and progressive external ophthalmoplegia (PEO) and are also associated with several mitochondrial depletion syndromes. This group also contains viral GP4-like and related bacterial helicases.


Pssm-ID: 410867  Cd Length: 266  Bit Score: 36.83  E-value: 7.80e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   5 FKDLDSLTNGFHPGNMIVIAARPAVGKST----LGLDIARNaaihnGECSVIFSLEMSRSEITMRMLSAEARVALNNIRs 80
Cdd:cd01122   30 FPSLNKLLKGHRRGELTIFTGPTGSGKTTflseYSLDLCMQ-----GVNTLWGSFEIKNVRLAKTMLTQFAGKNLEDNL- 103

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099  81 gsLSDDEWSKlarrmgEINDAPL-FIDDSPNLSMMEIRAKARRLKQRHDLKLVVIDYLQLMTSG-----KKVENRQQEVS 154
Cdd:cd01122  104 --REFDEWAD------KFELLPMyFMKFHGSTDIDEVLDAMEHAVYVYDIQHIVIDNLQFMMGTqasgsDRFELQDLIIG 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099 155 EFSRqlklLAKELNVPVVAISQlnrsPEQRADKKPL-LSDLRESGSIEQDADVVILLHRDDLYDSQNRSGeadLNVAKHR 233
Cdd:cd01122  176 KFRR----FATNNNVHITLVIH----PRKEDDDNELtTSSIFGSAKATQEADNVLILQDKRLISGEGKKF---LQIKKNR 244
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
 1-176 9.18e-03

KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and eukaryotes. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria.


Pssm-ID: 429095 [Multi-domain]  Cd Length: 231  Bit Score: 36.45  E-value: 9.18e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099    1 IKTGFKDLDSLTNGFHP-GNMIVIAARPAVGKSTLGLDIARNAAIHNGECSVIFSLEMSRSEI--TMRMLSAEARvALnn 77
Cdd:pfam06745   1 VKTGIPGLDEILKGGFPeGRVVLITGGPGTGKTIFGLQFLYNGALKYGEPGVFVTLEEPPEDLreNARSFGWDLE-KL-- 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 143295099   78 IRSGSLSDDEwsklARRMGEINDAPLFIDDSPNLsMMEIRAKARRLKQRHdlklVVIDYLqlmtSGKKVENRQQEVSEFS 157
Cdd:pfam06745  78 EEEGKLAIID----ASTSGIGIAEVEDRFDLEEL-IERLREAIREIGAKR----VVIDSI----TTLFYLLKPAVAREIL 144

                         170
                  ....*....|....*....
gi 143295099  158 RQLKLLAKELNVPVVAISQ 176
Cdd:pfam06745 145 RRLKRVLKGLGVTAIFTSE 163
 
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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