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Conserved domains on  [gi|2245531097|gb|URG39522|]
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gyrase A, partial [Neisseria meningitidis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK05560 super family cl35335
DNA gyrase subunit A; Validated
 1-65 2.14e-50

DNA gyrase subunit A; Validated


The actual alignment was detected with superfamily member PRK05560:

Pssm-ID: 235502 [Multi-domain]  Cd Length: 805  Bit Score: 167.13  E-value: 2.14e-50
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:PRK05560   62 KSARIVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARMSK 126
 
Name Accession Description Interval E-value
PRK05560 PRK05560
DNA gyrase subunit A; Validated
 1-65 2.14e-50

DNA gyrase subunit A; Validated


Pssm-ID: 235502 [Multi-domain]  Cd Length: 805  Bit Score: 167.13  E-value: 2.14e-50
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:PRK05560   62 KSARIVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARMSK 126
GyrA COG0188
DNA gyrase/topoisomerase IV, subunit A [Replication, recombination and repair];
1-65 4.07e-50

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


Pssm-ID: 439958 [Multi-domain]  Cd Length: 804  Bit Score: 166.37  E-value: 4.07e-50
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:COG0188    67 KSARVVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARLAK 131
gyrA TIGR01063
DNA gyrase, A subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ...
 1-65 1.59e-43

DNA gyrase, A 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. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273423 [Multi-domain]  Cd Length: 800  Bit Score: 148.23  E-value: 1.59e-43
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:TIGR01063  58 KSARIVGDVMGKYHPHGDSAIYDTLVRMAQDFSLRYPLVDGQGNFGSIDGDPPAAMRYTEARLTK 122
TOP4c cd00187
DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), ...
 1-65 3.89e-43

DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.


Pssm-ID: 238111 [Multi-domain]  Cd Length: 445  Bit Score: 143.48  E-value: 3.89e-43
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:cd00187    36 KVARLVGDVAGKYHPHGDSSLYDTIVRMAQDFSNNIPLLDPQGNFGSRDGDDAAAMRYTETRLSP 100
DNA_topoisoIV pfam00521
DNA gyrase/topoisomerase IV, subunit A;
1-65 1.08e-39

DNA gyrase/topoisomerase IV, subunit A;


Pssm-ID: 459843 [Multi-domain]  Cd Length: 432  Bit Score: 134.22  E-value: 1.08e-39
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGS-IDGLAAAAMRYTEIRMAK 65
Cdd:pfam00521  33 KVARLVGDVMGKYHPHGDASLYDAIVRMAQDFVGNIPLLDGQGNFGSrIDGDKDAAMRYTETRLSK 98
TOP4c smart00434
DNA Topoisomerase IV; Bacterial DNA topoisomerase IV, GyrA, ParC
 1-65 2.22e-39

DNA Topoisomerase IV; Bacterial DNA topoisomerase IV, GyrA, ParC


Pssm-ID: 214660 [Multi-domain]  Cd Length: 444  Bit Score: 133.46  E-value: 2.22e-39
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2245531097    1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSI-DGLAAAAMRYTEIRMAK 65
Cdd:smart00434  55 KSARGVGDVMGKYHPHGDSSLYDTIVRMAQDFSNNYPLLDGQGNFGSRlDGDDAAAMRYTETRLSP 120
 
Name Accession Description Interval E-value
PRK05560 PRK05560
DNA gyrase subunit A; Validated
 1-65 2.14e-50

DNA gyrase subunit A; Validated


Pssm-ID: 235502 [Multi-domain]  Cd Length: 805  Bit Score: 167.13  E-value: 2.14e-50
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:PRK05560   62 KSARIVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARMSK 126
GyrA COG0188
DNA gyrase/topoisomerase IV, subunit A [Replication, recombination and repair];
1-65 4.07e-50

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


Pssm-ID: 439958 [Multi-domain]  Cd Length: 804  Bit Score: 166.37  E-value: 4.07e-50
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:COG0188    67 KSARVVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARLAK 131
PRK05561 PRK05561
DNA topoisomerase 4 subunit A;
1-65 1.23e-44

DNA topoisomerase 4 subunit A;


Pssm-ID: 235503 [Multi-domain]  Cd Length: 742  Bit Score: 151.03  E-value: 1.23e-44
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:PRK05561   67 KSARVVGDVLGKYHPHGDSSIYDAMVRMAQDFSYRYPLVDGQGNFGSIDGDPAAAMRYTEARLSP 131
gyrA TIGR01063
DNA gyrase, A subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ...
 1-65 1.59e-43

DNA gyrase, A 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. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273423 [Multi-domain]  Cd Length: 800  Bit Score: 148.23  E-value: 1.59e-43
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:TIGR01063  58 KSARIVGDVMGKYHPHGDSAIYDTLVRMAQDFSLRYPLVDGQGNFGSIDGDPPAAMRYTEARLTK 122
TOP4c cd00187
DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), ...
 1-65 3.89e-43

DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.


Pssm-ID: 238111 [Multi-domain]  Cd Length: 445  Bit Score: 143.48  E-value: 3.89e-43
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:cd00187    36 KVARLVGDVAGKYHPHGDSSLYDTIVRMAQDFSNNIPLLDPQGNFGSRDGDDAAAMRYTETRLSP 100
DNA_topoisoIV pfam00521
DNA gyrase/topoisomerase IV, subunit A;
1-65 1.08e-39

DNA gyrase/topoisomerase IV, subunit A;


Pssm-ID: 459843 [Multi-domain]  Cd Length: 432  Bit Score: 134.22  E-value: 1.08e-39
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGS-IDGLAAAAMRYTEIRMAK 65
Cdd:pfam00521  33 KVARLVGDVMGKYHPHGDASLYDAIVRMAQDFVGNIPLLDGQGNFGSrIDGDKDAAMRYTETRLSK 98
TOP4c smart00434
DNA Topoisomerase IV; Bacterial DNA topoisomerase IV, GyrA, ParC
 1-65 2.22e-39

DNA Topoisomerase IV; Bacterial DNA topoisomerase IV, GyrA, ParC


Pssm-ID: 214660 [Multi-domain]  Cd Length: 444  Bit Score: 133.46  E-value: 2.22e-39
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2245531097    1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSI-DGLAAAAMRYTEIRMAK 65
Cdd:smart00434  55 KSARGVGDVMGKYHPHGDSSLYDTIVRMAQDFSNNYPLLDGQGNFGSRlDGDDAAAMRYTETRLSP 120
parC_Gneg TIGR01062
DNA topoisomerase IV, A subunit, proteobacterial; Operationally, topoisomerase IV is a type II ...
 1-65 1.38e-33

DNA topoisomerase IV, A 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. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 130134 [Multi-domain]  Cd Length: 735  Bit Score: 120.01  E-value: 1.38e-33
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGL-AAAAMRYTEIRMAK 65
Cdd:TIGR01062  58 KSARTVGDVLGKYHPHGDSACYEAMVLMAQPFSYRYPLVDGQGNWGAPDDPkSFAAMRYTESRLSK 123
PRK13979 PRK13979
DNA topoisomerase IV subunit A; Provisional
 1-64 1.02e-32

DNA topoisomerase IV subunit A; Provisional


Pssm-ID: 237576 [Multi-domain]  Cd Length: 957  Bit Score: 117.51  E-value: 1.02e-32
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMA 64
Cdd:PRK13979   70 KSARIVGDILGKYHPHGDSSVYDAMVILAQDFTTRMPLIDGHGNWGSIDGDSAAAMRYTEARLT 133
parC_Gpos TIGR01061
DNA topoisomerase IV, A subunit, Gram-positive; Operationally, topoisomerase IV is a type II ...
 1-65 3.03e-27

DNA topoisomerase IV, A subunit, Gram-positive; 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. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273422 [Multi-domain]  Cd Length: 738  Bit Score: 101.80  E-value: 3.03e-27
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGKYHPHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRYTEIRMAK 65
Cdd:TIGR01061  58 KSARTVGEIMGKYHPHGDSSIYDAMVRMSQDWKNNWTLVEMHGNNGSIDGDNAAAMRYTEARLSL 122
PRK09631 PRK09631
DNA topoisomerase IV subunit A; Provisional
 1-63 9.69e-13

DNA topoisomerase IV subunit A; Provisional


Pssm-ID: 236598 [Multi-domain]  Cd Length: 635  Bit Score: 60.49  E-value: 9.69e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIgKYHPHGDIAVYDTIVRMA-QDFamryvLVDGQGNFGSI-DGLAAAAMRYTEIRM 63
Cdd:PRK09631   53 KVANVVGNTM-KYHPHGDASIYEALVNLAnKDL-----FIDKQGNFGNLfTGDPASAARYIECRL 111
PRK12758 PRK12758
DNA gyrase/topoisomerase IV subunit A;
1-65 1.24e-12

DNA gyrase/topoisomerase IV subunit A;


Pssm-ID: 237192 [Multi-domain]  Cd Length: 869  Bit Score: 60.40  E-value: 1.24e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2245531097   1 KSARIVGDVIgKYHPHGDIAVYDTIVRMAQdfamRYVLVDGQGNFGSI-DGLAAAAMRYTEIRMAK 65
Cdd:PRK12758   72 KVANVVGHTM-QYHPHGDASIGDALVQLGQ----KDLLIDTQGNWGNIlTGDGAAAPRYIEARLSK 132
52 PHA02592
DNA topisomerase II medium subunit; Provisional
 13-58 4.24e-08

DNA topisomerase II medium subunit; Provisional


Pssm-ID: 222896 [Multi-domain]  Cd Length: 439  Bit Score: 47.36  E-value: 4.24e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2245531097  13 YHpHGDIAVYDTIVRMAQDFAMRYVLVDGQGNFGSIDGLAAAAMRY 58
Cdd:PHA02592   73 YH-HGETSAQDAGALMANTWNNNIPLLDGQGNFGSRLVQKAAAARY 117
PRK09630 PRK09630
DNA topoisomerase IV subunit A; Provisional
 1-64 1.99e-06

DNA topoisomerase IV subunit A; Provisional


Pssm-ID: 170022  Cd Length: 479  Bit Score: 42.57  E-value: 1.99e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2245531097   1 KSARIVGDVIGkYHPHGDIAVYDTIVRMAQdfamRYVLVDGQGNFGS-IDGLAAAAMRYTEIRMA 64
Cdd:PRK09630   53 KVANIAGRTMA-LHPHGDAPIVEALVVLAN----KGYLIDTQGNFGNpLTGDPHAAARYIEARLS 112
PTZ00108 PTZ00108
DNA topoisomerase 2-like protein; Provisional
 13-58 6.23e-05

DNA topoisomerase 2-like protein; Provisional


Pssm-ID: 240271 [Multi-domain]  Cd Length: 1388  Bit Score: 38.49  E-value: 6.23e-05
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 2245531097   13 YHpHGDIAVYDTIVRMAQDFA----MRYVLVDGQgnFGS--IDGLAAAAMRY 58
Cdd:PTZ00108   724 YH-HGEQSLQQTIVGMAQNFVgsnnINLLYPCGQ--FGSrlQGGKDHAAARY 772
PLN03128 PLN03128
DNA topoisomerase 2; Provisional
 13-65 2.19e-03

DNA topoisomerase 2; Provisional


Pssm-ID: 215593 [Multi-domain]  Cd Length: 1135  Bit Score: 34.30  E-value: 2.19e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2245531097   13 YHpHGDIAVYDTIVRMAQDF--AMRYVLVDGQGNFGS--IDGLAAAAMRYTEIRMAK 65
Cdd:PLN03128   717 YH-HGEASLASTIIGMAQDFvgSNNINLLTPSGQFGTrlQGGKDAASARYIFTRLSP 772
 
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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