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Q1RHT8 (GYRB_RICBR) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 56. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA gyrase subunit B

EC=5.99.1.3
Gene names
Name:gyrB
Ordered Locus Names:RBE_0995
OrganismRickettsia bellii (strain RML369-C) [Complete proteome] [HAMAP]
Taxonomic identifier336407 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiabelli group

Protein attributes

Sequence length808 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner and also catalyzes the interconversion of other topological isomers of double-stranded DNA rings, including catenanes and knotted rings By similarity. HAMAP-Rule MF_01898

Catalytic activity

ATP-dependent breakage, passage and rejoining of double-stranded DNA. HAMAP-Rule MF_01898

Cofactor

Magnesium. 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+ and Ca2+ By similarity.

Subunit structure

Heterotetramer, composed of two GyrA and two GyrB chains. Within the heterotetramer, GyrA contains the active site tyrosine that forms a covalent intermediate with the DNA, while GyrB contributes the cofactor binding sites and catalyzes ATP hydrolysis By similarity.

Subcellular location

Cytoplasm Potential HAMAP-Rule MF_01898.

Sequence similarities

Belongs to the type II topoisomerase family.

Contains 1 Toprim domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 808808DNA gyrase subunit B HAMAP-Rule MF_01898
PRO_0000273110

Regions

Domain429 – 544116Toprim

Sites

Metal binding4351Magnesium 1; catalytic By similarity
Metal binding5091Magnesium 1; catalytic By similarity
Metal binding5091Magnesium 2 By similarity
Metal binding5111Magnesium 2 By similarity
Site4601Interaction with DNA By similarity
Site4631Interaction with DNA By similarity

Sequences

Sequence LengthMass (Da)Tools
Q1RHT8 [UniParc].

Last modified May 16, 2006. Version 1.
Checksum: 9A6B883F87D5D26F

FASTA80890,843
        10         20         30         40         50         60 
MSEFEEKLNE SSYGADSIKV LKGLEAVRKR PGMYIGDVGD GSGLHHMIYE VVDNAIDEAL 

        70         80         90        100        110        120 
AGYCDLVRVV LNKNGSVTVS DNGRGIPVEI HEEEGISAAE VIMTQLHAGG KFDQNSYKVS 

       130        140        150        160        170        180 
GGLHGVGVSV VNALSDWLEL RIWRNNTEHL IRFNNGITEA PLAVVKENVD KKGTEVTFFP 

       190        200        210        220        230        240 
SVETFTNIEF DFSIIEHRLR ELAFLNSGVK ILLTDNRFEE VKEVEFYYTG GIEAYVKYLD 

       250        260        270        280        290        300 
RAKHAVHSCI VVNADNTESG ISLELAMHWN DSYHENILCF TNNIRQRDGG THLSAFKSGL 

       310        320        330        340        350        360 
TRVITAYLEN TGLNKKAKNA FSGEDTREGI CCVLSVKVPD PKFSSQTKDK LVSSEVRPIV 

       370        380        390        400        410        420 
ENAVYTKVLE WFEEHPADAK LIINKIMEAA NAREAARKAR ELTRRKSVLE VSNLPGKLAD 

       430        440        450        460        470        480 
CHAKDPAVSE LFIVEGDSAG GTAKQGRDSK IQAILPLRGK ILNVERARFD KMLGSDQIGT 

       490        500        510        520        530        540 
LITALGTGVD NREFSLEKLR YHKVIIMTDA DVDGSHIRTL LLTFFYRHMP ELINKGYLYI 

       550        560        570        580        590        600 
AQPPLYKVKK GASELYLKNE QALQDYLVKS AISDATLTLD NKEQLTNENL EELMSKVIKF 

       610        620        630        640        650        660 
NSLLDHASKK FNRSITEILA INDLLNNKIF DNESDSRLKK ALNALNSLEQ SPDKTDWEVL 

       670        680        690        700        710        720 
KHENKIEFFR FSRGLKERKI LLREQLESFE FINISKLALT IFDVFNKQLK LVVKNQEFDI 

       730        740        750        760        770        780 
LTPSILLNTI IECGKKGISV QRFKGLGEMN SDQLWDTTLD PKKRTLMQVR VAEVDEAEGI 

       790        800 
FSTLMGDVVE PRRQFIQSNA LNVVNLDV 

« Hide

References

[1]"Genome sequence of Rickettsia bellii illuminates the role of amoebae in gene exchanges between intracellular pathogens."
Ogata H., La Scola B., Audic S., Renesto P., Blanc G., Robert C., Fournier P.-E., Claverie J.-M., Raoult D.
PLoS Genet. 2:733-744(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: RML369-C.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000087 Genomic DNA. Translation: ABE05076.1.
RefSeqYP_538165.1. NC_007940.1.

3D structure databases

ProteinModelPortalQ1RHT8.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING336407.RBE_0995.

Proteomic databases

PRIDEQ1RHT8.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABE05076; ABE05076; RBE_0995.
GeneID3994964.
KEGGrbe:RBE_0995.
PATRIC17883537. VBIRicBel102610_1127.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0187.
HOGENOMHOG000075155.
KOK02470.
OMANINTREG.
OrthoDBEOG6P334W.
ProtClustDBPRK14939.

Enzyme and pathway databases

BioCycRBEL336407:GJCY-1022-MONOMER.

Family and domain databases

Gene3D3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 2 hits.
HAMAPMF_01898. GyrB.
InterProIPR002288. DNA_gyrase_B_C.
IPR011557. GyrB.
IPR003594. HATPase_ATP-bd.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR013760. Topo_IIA_like_dom.
IPR018522. TopoIIA_CS.
IPR006171. Toprim_domain.
[Graphical view]
PfamPF00204. DNA_gyraseB. 1 hit.
PF00986. DNA_gyraseB_C. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view]
PRINTSPR00418. TPI2FAMILY.
SMARTSM00387. HATPase_c. 1 hit.
SM00433. TOP2c. 1 hit.
[Graphical view]
SUPFAMSSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 2 hits.
TIGRFAMsTIGR01059. gyrB. 1 hit.
PROSITEPS00177. TOPOISOMERASE_II. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameGYRB_RICBR
AccessionPrimary (citable) accession number: Q1RHT8
Entry history
Integrated into UniProtKB/Swiss-Prot: January 23, 2007
Last sequence update: May 16, 2006
Last modified: April 16, 2014
This is version 56 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Rickettsia bellii strain RML369-C

Rickettsia bellii (strain RML369-C): entries and gene names