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Conserved domains on  [gi|1827346169|gb|QIS77073|]
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DNA gyrase subunit A, partial [Lactobacillus johnsonii]

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
 1-81 3.72e-62

DNA gyrase subunit A; Validated


The actual alignment was detected with superfamily member PRK05560:

Pssm-ID: 235502 [Multi-domain]  Cd Length: 805  Bit Score: 200.26  E-value: 3.72e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:PRK05560   57 DKPYKKSARIVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARMSKIAHELLADID 136


                  .
gi 1827346169  81 K 81
Cdd:PRK05560  137 K 137
 
Name Accession Description Interval E-value
PRK05560 PRK05560
DNA gyrase subunit A; Validated
 1-81 3.72e-62

DNA gyrase subunit A; Validated


Pssm-ID: 235502 [Multi-domain]  Cd Length: 805  Bit Score: 200.26  E-value: 3.72e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:PRK05560   57 DKPYKKSARIVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARMSKIAHELLADID 136


                  .
gi 1827346169  81 K 81
Cdd:PRK05560  137 K 137
GyrA COG0188
DNA gyrase/topoisomerase IV, subunit A [Replication, recombination and repair];
1-81 5.93e-61

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


Pssm-ID: 439958 [Multi-domain]  Cd Length: 804  Bit Score: 197.19  E-value: 5.93e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:COG0188    62 DKPYKKSARVVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARLAKIAEELLADID 141


                  .
gi 1827346169  81 K 81
Cdd:COG0188   142 K 142
gyrA TIGR01063
DNA gyrase, A subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ...
 1-81 5.23e-51

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: 169.80  E-value: 5.23e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:TIGR01063  53 DKPYKKSARIVGDVMGKYHPHGDSAIYDTLVRMAQDFSLRYPLVDGQGNFGSIDGDPPAAMRYTEARLTKIAEELLRDID 132


                  .
gi 1827346169  81 K 81
Cdd:TIGR01063 133 K 133
TOP4c cd00187
DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), ...
 1-81 4.16e-49

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: 160.04  E-value: 4.16e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:cd00187    31 DKPEKKVARLVGDVAGKYHPHGDSSLYDTIVRMAQDFSNNIPLLDPQGNFGSRDGDDAAAMRYTETRLSPIARLLLPDID 110


                  .
gi 1827346169  81 K 81
Cdd:cd00187   111 D 111
DNA_topoisoIV pfam00521
DNA gyrase/topoisomerase IV, subunit A;
1-81 7.48e-47

DNA gyrase/topoisomerase IV, subunit A;


Pssm-ID: 459843 [Multi-domain]  Cd Length: 432  Bit Score: 153.86  E-value: 7.48e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSV-DGDEPAAMRYTEAKMSKIAVEMLRDI 79
Cdd:pfam00521  28 DKPYKKVARLVGDVMGKYHPHGDASLYDAIVRMAQDFVGNIPLLDGQGNFGSRiDGDKDAAMRYTETRLSKIARELFPDI 107


                  ..
gi 1827346169  80 NK 81
Cdd:pfam00521 108 DD 109
TOP4c smart00434
DNA Topoisomerase IV; Bacterial DNA topoisomerase IV, GyrA, ParC
 1-81 2.93e-44

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


Pssm-ID: 214660 [Multi-domain]  Cd Length: 444  Bit Score: 147.33  E-value: 2.93e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169    1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSV-DGDEPAAMRYTEAKMSKIAVEMLRDI 79
Cdd:smart00434  50 DEPKVKSARGVGDVMGKYHPHGDSSLYDTIVRMAQDFSNNYPLLDGQGNFGSRlDGDDAAAMRYTETRLSPLARLLLPDI 129


                   ..
gi 1827346169   80 NK 81
Cdd:smart00434 130 DK 131
 
Name Accession Description Interval E-value
PRK05560 PRK05560
DNA gyrase subunit A; Validated
 1-81 3.72e-62

DNA gyrase subunit A; Validated


Pssm-ID: 235502 [Multi-domain]  Cd Length: 805  Bit Score: 200.26  E-value: 3.72e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:PRK05560   57 DKPYKKSARIVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARMSKIAHELLADID 136


                  .
gi 1827346169  81 K 81
Cdd:PRK05560  137 K 137
GyrA COG0188
DNA gyrase/topoisomerase IV, subunit A [Replication, recombination and repair];
1-81 5.93e-61

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


Pssm-ID: 439958 [Multi-domain]  Cd Length: 804  Bit Score: 197.19  E-value: 5.93e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:COG0188    62 DKPYKKSARVVGDVMGKYHPHGDSAVYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARLAKIAEELLADID 141


                  .
gi 1827346169  81 K 81
Cdd:COG0188   142 K 142
PRK05561 PRK05561
DNA topoisomerase 4 subunit A;
1-81 9.42e-56

DNA topoisomerase 4 subunit A;


Pssm-ID: 235503 [Multi-domain]  Cd Length: 742  Bit Score: 182.23  E-value: 9.42e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:PRK05561   62 DAKFKKSARVVGDVLGKYHPHGDSSIYDAMVRMAQDFSYRYPLVDGQGNFGSIDGDPAAAMRYTEARLSPIAELLLEEID 141


                  .
gi 1827346169  81 K 81
Cdd:PRK05561  142 E 142
gyrA TIGR01063
DNA gyrase, A subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ...
 1-81 5.23e-51

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: 169.80  E-value: 5.23e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:TIGR01063  53 DKPYKKSARIVGDVMGKYHPHGDSAIYDTLVRMAQDFSLRYPLVDGQGNFGSIDGDPPAAMRYTEARLTKIAEELLRDID 132


                  .
gi 1827346169  81 K 81
Cdd:TIGR01063 133 K 133
TOP4c cd00187
DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), ...
 1-81 4.16e-49

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: 160.04  E-value: 4.16e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:cd00187    31 DKPEKKVARLVGDVAGKYHPHGDSSLYDTIVRMAQDFSNNIPLLDPQGNFGSRDGDDAAAMRYTETRLSPIARLLLPDID 110


                  .
gi 1827346169  81 K 81
Cdd:cd00187   111 D 111
DNA_topoisoIV pfam00521
DNA gyrase/topoisomerase IV, subunit A;
1-81 7.48e-47

DNA gyrase/topoisomerase IV, subunit A;


Pssm-ID: 459843 [Multi-domain]  Cd Length: 432  Bit Score: 153.86  E-value: 7.48e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSV-DGDEPAAMRYTEAKMSKIAVEMLRDI 79
Cdd:pfam00521  28 DKPYKKVARLVGDVMGKYHPHGDASLYDAIVRMAQDFVGNIPLLDGQGNFGSRiDGDKDAAMRYTETRLSKIARELFPDI 107


                  ..
gi 1827346169  80 NK 81
Cdd:pfam00521 108 DD 109
TOP4c smart00434
DNA Topoisomerase IV; Bacterial DNA topoisomerase IV, GyrA, ParC
 1-81 2.93e-44

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


Pssm-ID: 214660 [Multi-domain]  Cd Length: 444  Bit Score: 147.33  E-value: 2.93e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169    1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSV-DGDEPAAMRYTEAKMSKIAVEMLRDI 79
Cdd:smart00434  50 DEPKVKSARGVGDVMGKYHPHGDSSLYDTIVRMAQDFSNNYPLLDGQGNFGSRlDGDDAAAMRYTETRLSPLARLLLPDI 129


                   ..
gi 1827346169   80 NK 81
Cdd:smart00434 130 DK 131
PRK13979 PRK13979
DNA topoisomerase IV subunit A; Provisional
 1-81 2.82e-41

DNA topoisomerase IV subunit A; Provisional


Pssm-ID: 237576 [Multi-domain]  Cd Length: 957  Bit Score: 142.55  E-value: 2.82e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:PRK13979   65 DKPYYKSARIVGDILGKYHPHGDSSVYDAMVILAQDFTTRMPLIDGHGNWGSIDGDSAAAMRYTEARLTPIAMEMLRDID 144


                  .
gi 1827346169  81 K 81
Cdd:PRK13979  145 K 145
parC_Gpos TIGR01061
DNA topoisomerase IV, A subunit, Gram-positive; Operationally, topoisomerase IV is a type II ...
 1-81 2.07e-38

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: 134.55  E-value: 2.07e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   1 DKQYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDGDEPAAMRYTEAKMSKIAVEMLRDIN 80
Cdd:TIGR01061  53 DKPYKKSARTVGEIMGKYHPHGDSSIYDAMVRMSQDWKNNWTLVEMHGNNGSIDGDNAAAMRYTEARLSLIASELLKDID 132


                  .
gi 1827346169  81 K 81
Cdd:TIGR01061 133 K 133
parC_Gneg TIGR01062
DNA topoisomerase IV, A subunit, proteobacterial; Operationally, topoisomerase IV is a type II ...
 3-81 2.64e-34

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: 122.71  E-value: 2.64e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1827346169   3 QYKKSARIVGEVMGKFHPHGDSSIYLAMAHMAQYFSYRYMLVDGHGNFGSVDG-DEPAAMRYTEAKMSKIAVEMLRDINK 81
Cdd:TIGR01062  55 KYKKSARTVGDVLGKYHPHGDSACYEAMVLMAQPFSYRYPLVDGQGNWGAPDDpKSFAAMRYTESRLSKISELLLEELGQ 134
PRK12758 PRK12758
DNA gyrase/topoisomerase IV subunit A;
1-76 1.15e-17

DNA gyrase/topoisomerase IV subunit A;


Pssm-ID: 237192 [Multi-domain]  Cd Length: 869  Bit Score: 75.43  E-value: 1.15e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1827346169   1 DKQYKKSARIVGEVMgKFHPHGDSSIYLAMAHMAQyfsyRYMLVDGHGNFGSV-DGDEPAAMRYTEAKMSKIAVEML 76
Cdd:PRK12758   67 DGRYNKVANVVGHTM-QYHPHGDASIGDALVQLGQ----KDLLIDTQGNWGNIlTGDGAAAPRYIEARLSKFALEVV 138
PRK09631 PRK09631
DNA topoisomerase IV subunit A; Provisional
 1-76 3.60e-15

DNA topoisomerase IV subunit A; Provisional


Pssm-ID: 236598 [Multi-domain]  Cd Length: 635  Bit Score: 68.20  E-value: 3.60e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1827346169   1 DKQYKKSARIVGEVMgKFHPHGDSSIYLAMAHMAQyfsyRYMLVDGHGNFGSV-DGDEPAAMRYTEAKMSKIAVEML 76
Cdd:PRK09631   48 DGKFHKVANVVGNTM-KYHPHGDASIYEALVNLAN----KDLFIDKQGNFGNLfTGDPASAARYIECRLTPLAKEVL 119
PRK09630 PRK09630
DNA topoisomerase IV subunit A; Provisional
 1-76 5.32e-11

DNA topoisomerase IV subunit A; Provisional


Pssm-ID: 170022  Cd Length: 479  Bit Score: 56.44  E-value: 5.32e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1827346169   1 DKQYKKSARIVGEVMGkFHPHGDSSIYLAMAHMAQyfsyRYMLVDGHGNFGS-VDGDEPAAMRYTEAKMSKIAVEML 76
Cdd:PRK09630   48 DGKMHKVANIAGRTMA-LHPHGDAPIVEALVVLAN----KGYLIDTQGNFGNpLTGDPHAAARYIEARLSPLAKEVL 119
 
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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