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Protein

DNA gyrase subunit B

Gene

gyrB

Organism
Chlamydia trachomatis (strain D/UW-3/Cx)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

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. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.UniRule annotation

Miscellaneous

Few gyrases are as efficient as E.coli at forming negative supercoils. Not all organisms have 2 type II topoisomerases; in organisms with a single type II topoisomerase this enzyme also has to decatenate newly replicated chromosomes.UniRule annotation

Catalytic activityi

ATP-dependent breakage, passage and rejoining of double-stranded DNA.UniRule annotation

Cofactori

Mg2+UniRule annotation, Mn2+UniRule annotation, Ca2+UniRule annotationNote: Binds two Mg2+ per subunit. The magnesium ions form salt bridges with both the protein and the DNA. Can also accept other divalent metal cations, such as Mn2+ or Ca2+.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi437Magnesium 1; catalyticUniRule annotation1
Metal bindingi511Magnesium 1; catalyticUniRule annotation1
Metal bindingi511Magnesium 2UniRule annotation1
Metal bindingi513Magnesium 2UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-binding, Isomerase, Topoisomerase
LigandATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciCTRA272561:G1G18-200-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
DNA gyrase subunit BUniRule annotation (EC:5.99.1.3UniRule annotation)
Gene namesi
Name:gyrBUniRule annotation
Ordered Locus Names:CT_190
OrganismiChlamydia trachomatis (strain D/UW-3/Cx)
Taxonomic identifieri272561 [NCBI]
Taxonomic lineageiBacteriaChlamydiaeChlamydialesChlamydiaceaeChlamydia/Chlamydophila groupChlamydia
Proteomesi
  • UP000000431 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001453051 – 804DNA gyrase subunit BAdd BLAST804

Proteomic databases

PRIDEiO84193

Interactioni

Subunit structurei

Heterotetramer, composed of two GyrA and two GyrB chains. In the heterotetramer, GyrA contains the active site tyrosine that forms a transient covalent intermediate with DNA, while GyrB binds cofactors and catalyzes ATP hydrolysis.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei462Interaction with DNAUniRule annotation1
Sitei465Interaction with DNAUniRule annotation1

Structurei

3D structure databases

ProteinModelPortaliO84193
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini431 – 546ToprimUniRule annotationAdd BLAST116

Sequence similaritiesi

Belongs to the type II topoisomerase GyrB family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C7D Bacteria
COG0187 LUCA
InParanoidiO84193
KOiK02470
OMAiDCSSRDP

Family and domain databases

CDDicd00075 HATPase_c, 1 hit
cd03366 TOPRIM_TopoIIA_GyrB, 1 hit
Gene3Di3.30.230.10, 1 hit
3.30.565.10, 1 hit
3.40.50.670, 2 hits
HAMAPiMF_01898 GyrB, 1 hit
InterProiView protein in InterPro
IPR002288 DNA_gyrase_B_C
IPR011557 GyrB
IPR003594 HATPase_C
IPR036890 HATPase_C_sf
IPR020568 Ribosomal_S5_D2-typ_fold
IPR014721 Ribosomal_S5_D2-typ_fold_subgr
IPR001241 Topo_IIA
IPR013760 Topo_IIA-like_dom_sf
IPR013759 Topo_IIA_B_C
IPR013506 Topo_IIA_bsu_dom2
IPR018522 TopoIIA_CS
IPR006171 TOPRIM_domain
IPR034160 TOPRIM_GyrB
PANTHERiPTHR10169 PTHR10169, 1 hit
PfamiView protein in Pfam
PF00204 DNA_gyraseB, 1 hit
PF00986 DNA_gyraseB_C, 1 hit
PF02518 HATPase_c, 1 hit
PF01751 Toprim, 1 hit
SMARTiView protein in SMART
SM00387 HATPase_c, 1 hit
SM00433 TOP2c, 1 hit
SUPFAMiSSF54211 SSF54211, 1 hit
SSF55874 SSF55874, 1 hit
SSF56719 SSF56719, 2 hits
TIGRFAMsiTIGR01059 gyrB, 1 hit
PROSITEiView protein in PROSITE
PS00177 TOPOISOMERASE_II, 1 hit
PS50880 TOPRIM, 1 hit

Sequencei

Sequence statusi: Complete.

O84193-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDAQEKKYDA SAITVLEGLQ AVRERPGMYI GDTGVTGLHH LVYEVVDNSI
60 70 80 90 100
DEAMAGFCTE VVVRILEDGG ISISDNGRGI PIQIHEKESA KQGREISALE
110 120 130 140 150
VVLTVLHAGG KFDKDSYKVS GGLHGVGVSC VNALSEKFIA KVFKDGQAYS
160 170 180 190 200
MEFSRGAPLT TLQVLGPTDK RGTEVLFYPD PAIFSTCVFD RAILMKRLRE
210 220 230 240 250
LAFLNRGVTI VFEDDRDTGF DKVVFFYEGG IQSFVSYLNQ NKEILFPNPI
260 270 280 290 300
YMQGSRPGDD GDIEFEAALQ WNSGYSELIY SYANNIPTRQ GGTHLTGFST
310 320 330 340 350
ALTRAVNSYI KAHNLSKSDK LSLTGEDIKE GLVAIVSVKV PNPQFEGQTK
360 370 380 390 400
QKLGNSDVGS VSQQISGEVL TTFFEENPQI AKTIVDKVFV AAQAREAAKR
410 420 430 440 450
ARELTLRKSA LDSARLPGKL IDCLEKDPEK CEMYIVEGDS AGGSAKQGRD
460 470 480 490 500
RRFQAILPIR GKILNVEKAR LQKVFQNQEI GSIIAALGCG IGKDNFNLSK
510 520 530 540 550
LRYKRIIIMT DADVDGSHIR TLLLTFFYRH MSALIENECV YIAQPPLYRV
560 570 580 590 600
SKKKDFRYIL SEKEMDGYLL NLGTKESQIV FDDTLRDLRG EALETFVNLI
610 620 630 640 650
LEVESFIVSL EKKAIPFSEF LDMFRDGAYP LYYYPPESGK QGGSYLYSHE
660 670 680 690 700
EKEAAIAANE ESASRILELY KGSVLEELQR DLGDYGYDIR NYLHPKGSGI
710 720 730 740 750
TVSTEDPKIS PYVCYTLKEV IDYLKGLGRK GIEIQRYKGL GEMNADQLWD
760 770 780 790 800
TTMNPEQRTL VRVSLKDAVE ADHIFTMLMG EEVPPRREFI ESHALSIRMN

NLDI
Length:804
Mass (Da):89,774
Last modified:November 1, 1998 - v1
Checksum:i3DE9305D78936A2A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE001273 Genomic DNA Translation: AAC67782.1
PIRiG71546
RefSeqiNP_219694.1, NC_000117.1
WP_009871536.1, NC_000117.1

Genome annotation databases

EnsemblBacteriaiAAC67782; AAC67782; CT_190
GeneIDi35556393
884937
KEGGictr:CT_190
PATRICifig|272561.5.peg.204

Similar proteinsi

Entry informationi

Entry nameiGYRB_CHLTR
AccessioniPrimary (citable) accession number: O84193
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: November 1, 1998
Last modified: March 28, 2018
This is version 110 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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