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Conserved domains on  [gi|2125200413|pdb|7DQI|A]
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Chain A, DNA gyrase subunit B

Protein Classification

DNA gyrase subunit B family protein( domain architecture ID 999984)

DNA gyrase subunit B (GyrB) is the ATPase subunit of DNA gyrase, which is a type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state; may be partial

CATH:  3.30.230.10
EC:  5.6.2.2
Gene Ontology:  GO:0006265|GO:0005524|GO:0003677|GO:0003918
PubMed:  11395412|7980433|12596227
SCOP:  4000168

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
gyrB super family cl36442
DNA gyrase subunit B; Provisional
 1-206 1.42e-174

DNA gyrase subunit B; Provisional


The actual alignment was detected with superfamily member PRK14939:

Pssm-ID: 237860 [Multi-domain]  Cd Length: 756  Bit Score: 496.93  E-value: 1.42e-174
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         1 LDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:PRK14939  18 LDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTDIHPEEGVSAAEVIM 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLET 160
Cdd:PRK14939  98 TVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGETDKTGTEVRFWPSPEI 177

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
7DQI_A       161 FTNvTEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHYEGG 206
Cdd:PRK14939 178 FEN-TEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEEFHYEGG 222
 
Name Accession Description Interval E-value
gyrB PRK14939
DNA gyrase subunit B; Provisional
 1-206 1.42e-174

DNA gyrase subunit B; Provisional


Pssm-ID: 237860 [Multi-domain]  Cd Length: 756  Bit Score: 496.93  E-value: 1.42e-174
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         1 LDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:PRK14939  18 LDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTDIHPEEGVSAAEVIM 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLET 160
Cdd:PRK14939  98 TVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGETDKTGTEVRFWPSPEI 177

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
7DQI_A       161 FTNvTEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHYEGG 206
Cdd:PRK14939 178 FEN-TEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEEFHYEGG 222
GyrB COG0187
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
1-206 1.14e-137

DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];


Pssm-ID: 439957 [Multi-domain]  Cd Length: 635  Bit Score: 398.63  E-value: 1.14e-137
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        1 LDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:COG0187  17 LEAVRKRPGMYIGSTDE-RGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVDIHPKEGKSALEVVL 95

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A       81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLET 160
Cdd:COG0187  96 TVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKTDRTGTTVRFKPDPEI 175

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
7DQI_A      161 FTnVTEFEYEILAKRLRELSFLNSGVSIRLRDKRDG--KEDHFHYEGG 206
Cdd:COG0187 176 FE-TTEFDYETLAERLRELAFLNKGLTITLTDEREEepKEETFHYEGG 222
gyrB TIGR01059
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ...
 1-206 4.42e-134

DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273421 [Multi-domain]  Cd Length: 654  Bit Score: 390.18  E-value: 4.42e-134
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A          1 LDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:TIGR01059  12 LEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHPEEGISAVEVVL 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLET 160
Cdd:TIGR01059  91 TVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGETKKTGTTVRFWPDPEI 170

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
7DQI_A        161 FTnVTEFEYEILAKRLRELSFLNSGVSIRLRDKRD--GKEDHFHYEGG 206
Cdd:TIGR01059 171 FE-TTEFDFDILAKRLRELAFLNSGVKISLEDERDgkGKKVTFHYEGG 217
HATPase_GyrB-like cd16928
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ...
 21-201 2.11e-113

Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes histidine kinase-like ATPase domain of the B subunit of DNA gyrase. Bacterial DNA gyrase is a type II topoisomerase (type II as it transiently cleaves both strands of DNA) which catalyzes the introduction of negative supercoils into DNA, possibly by a mechanism in which one segment of the double-stranded DNA substrate is passed through a transient break in a second segment. It consists of GyrA and GyrB subunits in an A2B2 stoichiometry; GyrA subunits catalyze strand-breakage and reunion reactions, and GyrB subunits hydrolyze ATP. DNA gyrase is found in bacteria, plants and archaea, but as it is absent in humans it is a possible drug target for the treatment of bacterial and parasite infections.


Pssm-ID: 340405 [Multi-domain]  Cd Length: 180  Bit Score: 321.02  E-value: 2.11e-113
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A       21 LHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGL 100
Cdd:cd16928   1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A      101 HGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLETFTNvTEFEYEILAKRLRELS 180
Cdd:cd16928  81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKKTGTTVRFWPDPEIFEK-TEFDFDTLKRRLRELA 159

                       170       180
                ....*....|....*....|.
7DQI_A      181 FLNSGVSIRLRDKRDGKEDHF 201
Cdd:cd16928 160 FLNKGLKIVLEDERTGKEEVF 180
TOP2c smart00433
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
 20-206 1.05e-99

TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE


Pssm-ID: 214659 [Multi-domain]  Cd Length: 594  Bit Score: 300.24  E-value: 1.05e-99
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A          20 GLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGG 99
Cdd:smart00433   1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         100 LHGVGVSVVNALSQKLELVIQREGKIHRQIYE-HGVPQAPLAVTGETEKTGTMVRFWPSLETFTNVTEFEYEILAKRLRE 178
Cdd:smart00433  81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGMTTDDDFELLKRRLRE 160

                          170       180
                   ....*....|....*....|....*...
7DQI_A         179 LSFLNSGVSIRLRDKRDGKEDHFHYEGG 206
Cdd:smart00433 161 LAFLNKGVKITLNDERSDEEKTFLFEGG 188
HATPase_c pfam02518
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ...
 16-160 7.84e-15

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.


Pssm-ID: 460579 [Multi-domain]  Cd Length: 109  Bit Score: 67.39  E-value: 7.84e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         16 DDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPeegvsaaevimtvlHAGGKFDDnSYK 95
Cdd:pfam02518   1 GDELRLRQVLSNLLDNALKHAAKAGEITVTLSEGGELTLTVEDNGIGIPPEDLP--------------RIFEPFST-ADK 65

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
7DQI_A         96 VSGGLHGVGVSVVNALSQKLelviqrEGKIHRQiyehgvpqaplavtgETEKTGTMVRFWPSLET 160
Cdd:pfam02518  66 RGGGGTGLGLSIVRKLVELL------GGTITVE---------------SEPGGGTTVTLTLPLAQ 109
 
Name Accession Description Interval E-value
gyrB PRK14939
DNA gyrase subunit B; Provisional
 1-206 1.42e-174

DNA gyrase subunit B; Provisional


Pssm-ID: 237860 [Multi-domain]  Cd Length: 756  Bit Score: 496.93  E-value: 1.42e-174
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         1 LDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:PRK14939  18 LDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTDIHPEEGVSAAEVIM 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLET 160
Cdd:PRK14939  98 TVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGETDKTGTEVRFWPSPEI 177

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
7DQI_A       161 FTNvTEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHYEGG 206
Cdd:PRK14939 178 FEN-TEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEEFHYEGG 222
GyrB COG0187
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
1-206 1.14e-137

DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];


Pssm-ID: 439957 [Multi-domain]  Cd Length: 635  Bit Score: 398.63  E-value: 1.14e-137
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        1 LDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:COG0187  17 LEAVRKRPGMYIGSTDE-RGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVDIHPKEGKSALEVVL 95

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A       81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLET 160
Cdd:COG0187  96 TVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKTDRTGTTVRFKPDPEI 175

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
7DQI_A      161 FTnVTEFEYEILAKRLRELSFLNSGVSIRLRDKRDG--KEDHFHYEGG 206
Cdd:COG0187 176 FE-TTEFDYETLAERLRELAFLNKGLTITLTDEREEepKEETFHYEGG 222
gyrB TIGR01059
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ...
 1-206 4.42e-134

DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273421 [Multi-domain]  Cd Length: 654  Bit Score: 390.18  E-value: 4.42e-134
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A          1 LDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:TIGR01059  12 LEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHPEEGISAVEVVL 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLET 160
Cdd:TIGR01059  91 TVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGETKKTGTTVRFWPDPEI 170

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
7DQI_A        161 FTnVTEFEYEILAKRLRELSFLNSGVSIRLRDKRD--GKEDHFHYEGG 206
Cdd:TIGR01059 171 FE-TTEFDFDILAKRLRELAFLNSGVKISLEDERDgkGKKVTFHYEGG 217
gyrB PRK05644
DNA gyrase subunit B; Validated
 1-206 6.21e-134

DNA gyrase subunit B; Validated


Pssm-ID: 235542 [Multi-domain]  Cd Length: 638  Bit Score: 389.45  E-value: 6.21e-134
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         1 LDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:PRK05644  19 LEAVRKRPGMYIGSTGE-RGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDIHPKTGKPAVEVVL 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLET 160
Cdd:PRK05644  98 TVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVIGETDETGTTVTFKPDPEI 177

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
7DQI_A       161 FTnVTEFEYEILAKRLRELSFLNSGVSIRLRDKRDG--KEDHFHYEGG 206
Cdd:PRK05644 178 FE-TTEFDYDTLATRLRELAFLNKGLKITLTDEREGeeKEETFHYEGG 224
PRK05559 PRK05559
DNA topoisomerase IV subunit B; Reviewed
 1-206 1.34e-114

DNA topoisomerase IV subunit B; Reviewed


Pssm-ID: 235501 [Multi-domain]  Cd Length: 631  Bit Score: 339.77  E-value: 1.34e-114
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         1 LDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:PRK05559  19 LEPVRKRPGMYIGSTDT-RGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVGIHPEEGKSGVEVIL 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGET--EKTGTMVRFWPSL 158
Cdd:PRK05559  98 TKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTAgkRKTGTRVRFWPDP 177

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
7DQI_A       159 ETFTNvTEFEYEILAKRLRELSFLNSGVSIRLRDKRdgKEDHFHYEGG 206
Cdd:PRK05559 178 KIFDS-PKFSPERLKERLRSKAFLLPGLTITLNDER--ERQTFHYENG 222
HATPase_GyrB-like cd16928
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ...
 21-201 2.11e-113

Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes histidine kinase-like ATPase domain of the B subunit of DNA gyrase. Bacterial DNA gyrase is a type II topoisomerase (type II as it transiently cleaves both strands of DNA) which catalyzes the introduction of negative supercoils into DNA, possibly by a mechanism in which one segment of the double-stranded DNA substrate is passed through a transient break in a second segment. It consists of GyrA and GyrB subunits in an A2B2 stoichiometry; GyrA subunits catalyze strand-breakage and reunion reactions, and GyrB subunits hydrolyze ATP. DNA gyrase is found in bacteria, plants and archaea, but as it is absent in humans it is a possible drug target for the treatment of bacterial and parasite infections.


Pssm-ID: 340405 [Multi-domain]  Cd Length: 180  Bit Score: 321.02  E-value: 2.11e-113
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A       21 LHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGL 100
Cdd:cd16928   1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A      101 HGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEKTGTMVRFWPSLETFTNvTEFEYEILAKRLRELS 180
Cdd:cd16928  81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKKTGTTVRFWPDPEIFEK-TEFDFDTLKRRLRELA 159

                       170       180
                ....*....|....*....|.
7DQI_A      181 FLNSGVSIRLRDKRDGKEDHF 201
Cdd:cd16928 160 FLNKGLKIVLEDERTGKEEVF 180
TOP2c smart00433
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
 20-206 1.05e-99

TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE


Pssm-ID: 214659 [Multi-domain]  Cd Length: 594  Bit Score: 300.24  E-value: 1.05e-99
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A          20 GLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGG 99
Cdd:smart00433   1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         100 LHGVGVSVVNALSQKLELVIQREGKIHRQIYE-HGVPQAPLAVTGETEKTGTMVRFWPSLETFTNVTEFEYEILAKRLRE 178
Cdd:smart00433  81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGMTTDDDFELLKRRLRE 160

                          170       180
                   ....*....|....*....|....*...
7DQI_A         179 LSFLNSGVSIRLRDKRDGKEDHFHYEGG 206
Cdd:smart00433 161 LAFLNKGVKITLNDERSDEEKTFLFEGG 188
parE_Gneg TIGR01055
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ...
 1-206 2.67e-66

DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. This protein is active as an alpha(2)beta(2) heterotetramer. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 130127 [Multi-domain]  Cd Length: 625  Bit Score: 214.40  E-value: 2.67e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A          1 LDAVRKRPGMYIgdtdDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:TIGR01055  15 LEPVRKRPGMYT----DTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHPKEGVSAVEVIL 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         81 TVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVTGETEK--TGTMVRFWPSL 158
Cdd:TIGR01055  91 TTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCGKrlTGTSVHFTPDP 170

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
7DQI_A        159 ETFTNVtEFEYEILAKRLRELSFLNSGVSIRLRDKRDGKEDHFHYEGG 206
Cdd:TIGR01055 171 EIFDSL-HFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKALWNYPDG 217
PTZ00109 PTZ00109
DNA gyrase subunit b; Provisional
 1-204 6.59e-59

DNA gyrase subunit b; Provisional


Pssm-ID: 240272 [Multi-domain]  Cd Length: 903  Bit Score: 198.18  E-value: 6.59e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         1 LDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIM 80
Cdd:PTZ00109 111 LEAVRKRPGMYIGNTDE-KGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVSEKTGKSGLETVL 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        81 TVLHAGGKFDD----------------------------------------NSYKVSGGLHGVGVSVVNALSQKLELVIQ 120
Cdd:PTZ00109 190 TVLHSGGKFQDtfpknsrsdksedkndtksskkgksshvkgpkeakekessQMYEYSSGLHGVGLSVVNALSSFLKVDVF 269

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A       121 REGKIHRQIYEHGVPQAPLAVTGE-TEKTGTMVRFWPSLET-FTNVTE-------------FEYEILAKRLRELSFLNSG 185
Cdd:PTZ00109 270 KGGKIYSIELSKGKVTKPLSVFSCpLKKRGTTIHFLPDYKHiFKTHHQhteteeeegckngFNLDLIKNRIHELSYLNPG 349

                        250       260
                 ....*....|....*....|
7DQI_A       186 VSIRLRDKRDGKEDHF-HYE 204
Cdd:PTZ00109 350 LTFYLVDERIANENNFyPYE 369
PLN03128 PLN03128
DNA topoisomerase 2; Provisional
 7-194 6.30e-21

DNA topoisomerase 2; Provisional


Pssm-ID: 215593 [Multi-domain]  Cd Length: 1135  Bit Score: 90.15  E-value: 6.30e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A          7 RPGMYIGDTDDGT--------------------GLHHMVFEVVDNAIDEALAG-HCKEIIVTIHAD-NSVSVQDDGRGIP 64
Cdd:PLN03128   19 RPDTYIGSTEKHTqtlwvyeggemvnrevtyvpGLYKIFDEILVNAADNKQRDpSMDSLKVDIDVEqNTISVYNNGKGIP 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         65 TGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQ--KLELVIQREGKIHRQIYEHGVPQA--PLA 140
Cdd:PLN03128   99 VEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTefTVETADGNRGKKYKQVFTNNMSVKsePKI 178

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
7DQI_A        141 VTGETEKTGTMVRFWPSLETFTN--VTEFEYEILAKRLRELS-FLNSGVSIRLRDKR 194
Cdd:PLN03128  179 TSCKASENWTKITFKPDLAKFNMtrLDEDVVALMSKRVYDIAgCLGKKLKVELNGKK 235
PTZ00108 PTZ00108
DNA topoisomerase 2-like protein; Provisional
 7-194 3.75e-19

DNA topoisomerase 2-like protein; Provisional


Pssm-ID: 240271 [Multi-domain]  Cd Length: 1388  Bit Score: 85.10  E-value: 3.75e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A          7 RPGMYIGDTDDGT----------------------GLHHMVFEVVDNAID----EALAGHCKEIIVTI-HADNSVSVQDD 59
Cdd:PTZ00108   22 RPDTYIGSIETQTedmwvydeeknrmvyktityvpGLYKIFDEILVNAADnkarDKGGHRMTYIKVTIdEENGEISVYND 101

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         60 GRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQKLELVIQ--REGKIHRQIYEHGVPQ- 136
Cdd:PTZ00108  102 GEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECVdsKSGKKFKMTWTDNMSKk 181

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
7DQI_A        137 -APLAVTGETEKTGTMVRFWPSLETFtNVTEFEYEILA---KRLRELSFLNSGVSIRLRDKR 194
Cdd:PTZ00108  182 sEPRITSYDGKKDYTKVTFYPDYAKF-GMTEFDDDMLRllkKRVYDLAGCFGKLKVYLNGER 242
HATPase_c smart00387
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
 17-127 4.61e-18

Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.


Pssm-ID: 214643 [Multi-domain]  Cd Length: 111  Bit Score: 76.15  E-value: 4.61e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A          17 DGTGLHHMVFEVVDNAIDEALAGhcKEIIVTIHADN---SVSVQDDGRGIPtgihpeegvsaAEVIMTVLHAGGKFDDNS 93
Cdd:smart00387   2 DPDRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGdhvEITVEDNGPGIP-----------PEDLEKIFEPFFRTDKRS 68

                           90       100       110
                   ....*....|....*....|....*....|....
7DQI_A          94 YKVSGglHGVGVSVVNALSQKLELVIQREGKIHR 127
Cdd:smart00387  69 RKIGG--TGLGLSIVKKLVELHGGEISVESEPGG 100
39 PHA02569
DNA topoisomerase II large subunit; Provisional
 2-180 2.38e-17

DNA topoisomerase II large subunit; Provisional


Pssm-ID: 177398 [Multi-domain]  Cd Length: 602  Bit Score: 79.41  E-value: 2.38e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         2 DAVRKRPGMYIGDTDDGT----------------GLHHMVFEVVDNAIDEALAG---HCKEIIVTIHaDNSVSVQDDGRG 62
Cdd:PHA02569  11 EHILKRPGMYIGSVAYEAherflfgkftqveyvpGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTIK-NNQVTVSDNGRG 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A        63 IPTG--IHPE-EGVSAAEVIMTVLHAGGKFDDNSyKVSGGLHGVGVSVVNALSQ---------KLELVIQREGKIHRQIY 130
Cdd:PHA02569  90 IPQAmvTTPEgEEIPGPVAAWTRTKAGSNFDDTN-RVTGGMNGVGSSLTNFFSVlfigetcdgKNEVTVNCSNGAENISW 168

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
7DQI_A       131 EhgvpqaplavTGETEKTGTMVRFWPSLETF--TNVTEFEYEILAKRLRELS 180
Cdd:PHA02569 169 S----------TKPGKGKGTSVTFIPDFSHFevNGLDQQYLDIILDRLQTLA 210
HATPase_TopII-like cd16930
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ...
 20-156 2.04e-15

Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the histidine kinase-like ATPase (HATpase) domains of human topoisomerase IIA (TopIIA) and TopIIB, Saccharomyces cerevisae TOP2p, and related proteins. These proteins catalyze the passage of DNA double strands through a transient double-strand break in the presence of ATP.


Pssm-ID: 340407 [Multi-domain]  Cd Length: 147  Bit Score: 70.06  E-value: 2.04e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A       20 GLHHMVFEVVDNAID-EALAGHCKEIIVTIHAD-NSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVS 97
Cdd:cd16930   4 GLYKIFDEILVNAADnKQRDKSMTCIKVTIDPEnNEISVWNNGKGIPVVIHKEEKIYVPEMIFGHLLTSSNYDDDEKKVT 83

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
7DQI_A       98 GGLHGVGVSVVNALSQK--LELVIQREGKIHRQIYEHGVPQA--PLAVTGETEKTGTMVRFWP 156
Cdd:cd16930  84 GGRNGYGAKLCNIFSTEftVETADSESKKKFKQTWTNNMGKAsePKITPYEKGKDYTKVTFKP 146
HATPase_c pfam02518
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ...
 16-160 7.84e-15

Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.


Pssm-ID: 460579 [Multi-domain]  Cd Length: 109  Bit Score: 67.39  E-value: 7.84e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         16 DDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTGIHPeegvsaaevimtvlHAGGKFDDnSYK 95
Cdd:pfam02518   1 GDELRLRQVLSNLLDNALKHAAKAGEITVTLSEGGELTLTVEDNGIGIPPEDLP--------------RIFEPFST-ADK 65

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
7DQI_A         96 VSGGLHGVGVSVVNALSQKLelviqrEGKIHRQiyehgvpqaplavtgETEKTGTMVRFWPSLET 160
Cdd:pfam02518  66 RGGGGTGLGLSIVRKLVELL------GGTITVE---------------SEPGGGTTVTLTLPLAQ 109
PLN03237 PLN03237
DNA topoisomerase 2; Provisional
 50-173 7.81e-13

DNA topoisomerase 2; Provisional


Pssm-ID: 215641 [Multi-domain]  Cd Length: 1465  Bit Score: 66.42  E-value: 7.81e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A         50 ADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSQklELVIQ----REGKI 125
Cdd:PLN03237  109 EQNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFST--EFVIEtadgKRQKK 186

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
7DQI_A        126 HRQIYEH--GVPQAPLAVTGETEKTGTMVRFWPSLETFtNVTEFEYEILA 173
Cdd:PLN03237  187 YKQVFSNnmGKKSEPVITKCKKSENWTKVTFKPDLAKF-NMTHLEDDVVA 235
HATPase cd00075
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ...
 21-115 2.88e-06

Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ATPase (HATPase) domains of several ATP-binding proteins such as histidine kinase, DNA gyrase B, topoisomerases, heat shock protein 90 (HSP90), phytochrome-like ATPases and DNA mismatch repair proteins. Domains belonging to this superfamily are also referred to as GHKL (gyrase, heat-shock protein 90, histidine kinase, MutL) ATPase domains.


Pssm-ID: 340391 [Multi-domain]  Cd Length: 102  Bit Score: 44.13  E-value: 2.88e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
7DQI_A       21 LHHMVFEVVDNAIDEALAGhcKEIIVTIHADNS---VSVQDDGRGIPTGIHPeegvsaaevimtvlHAGGKFDDNSYKVS 97
Cdd:cd00075   1 LEQVLSNLLDNALKYSPPG--GTIEISLRQEGDgvvLEVEDNGPGIPEEDLE--------------RIFERFYRGDKSRE 64

                        90
                ....*....|....*...
7DQI_A       98 GGLHGVGVSVVNALSQKL 115
Cdd:cd00075  65 GGGTGLGLAIVRRIVEAH 82
 
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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