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P55992 (GYRB_HELPY) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 93. 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:HP_0501
OrganismHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori) [Reference proteome] [HAMAP]
Taxonomic identifier85962 [NCBI]
Taxonomic lineageBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter

Protein attributes

Sequence length773 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 – 773773DNA gyrase subunit B HAMAP-Rule MF_01898
PRO_0000145314

Regions

Domain416 – 530115Toprim

Sites

Metal binding4221Magnesium 1; catalytic By similarity
Metal binding4951Magnesium 1; catalytic By similarity
Metal binding4951Magnesium 2 By similarity
Metal binding4971Magnesium 2 By similarity
Site4471Interaction with DNA By similarity
Site4501Interaction with DNA By similarity

Sequences

Sequence LengthMass (Da)Tools
P55992 [UniParc].

Last modified November 1, 1997. Version 1.
Checksum: FDB47D3112CE8661

FASTA77387,367
        10         20         30         40         50         60 
MQNYQSHSIK VLKGLEGVRK RPGMYIGDTN VGGLHHMVYE VVDNAVDESM AGFCDTINIT 

        70         80         90        100        110        120 
LTDEGSCIVE DNGRGIPVDI HPTEKIPACT VVLTILHAGG KFDNDTYKVS GGLHGVGVSV 

       130        140        150        160        170        180 
VNALSKRLIM TIKKEGQIYR QEFEKGIPTS ELEIIGKTKS AKESGTTIEF FPDESVMEVV 

       190        200        210        220        230        240 
EFQAGILQKR FKEMAYLNDG LKISFKEEKT QLQETYFYED GLKQFVKDSA KKELLTPIIS 

       250        260        270        280        290        300 
FKSMDEETRT SIEVALAYAD DYNENTLSFV NNIKTSEGGT HEAGFKMGLS KAILQYIGNN 

       310        320        330        340        350        360 
IKTKESRPIS EDIKEGLIAV VSLKMSEPLF EGQTKSKLGS SYARALVSKL VYDKIHQFLE 

       370        380        390        400        410        420 
ENPNEAKIIA NKALLAAKAR EASKKARELT RKKDNLSVGT LPGKLADCQS KDPLESEIFL 

       430        440        450        460        470        480 
VEGDSAGGSA KQGRDRVFQA ILPLKGKILN VEKSHLSKIL KSEEIKNMIT AFGCGIQESF 

       490        500        510        520        530        540 
DIERLRYHKI IIMTDADVDG SHIQTLLMTF FYRYLRPLIE QGHVYIAQAP LYKYKKGKTE 

       550        560        570        580        590        600 
IYLKDSVALD HFLIEHGINS VDIEGIGKND LMNLLKVARH YRYALLELEK RYNLLEILRF 

       610        620        630        640        650        660 
LIETKDALSL DMKVLEKSIL EKLEGLNYQI LRSFATEESL HLHTQTPKGL VEFNLDDNLF 

       670        680        690        700        710        720 
KEVLFEEANY TYQKLMEYNL DFLENKDILA FLEEVENHAK KGANIQRYKG LGEMNPNDLW 

       730        740        750        760        770 
ETTMHKENRS LIKLKIEDLE KTDAVFSLCM GDEVEPRRAF IQAHAKDVKQ LDV 

« Hide

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AE000511 Genomic DNA. Translation: AAD07566.1.
PIRE64582.
RefSeqNP_207298.1. NC_000915.1.
YP_006934423.1. NC_018939.1.

3D structure databases

ProteinModelPortalP55992.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-3593N.
IntActP55992. 3 interactions.
MINTMINT-168943.
STRING85962.HP0501.

Proteomic databases

PRIDEP55992.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAD07566; AAD07566; HP_0501.
GeneID900050.
KEGGheo:C694_02575.
hpy:HP0501.
PATRIC20592277. VBIHelPyl33062_0527.

Phylogenomic databases

eggNOGCOG0187.
KOK02470.
OMAAFPTHYP.
OrthoDBEOG6P334W.

Enzyme and pathway databases

BioCycHPY:HP0501-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_HELPY
AccessionPrimary (citable) accession number: P55992
Entry history
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: July 9, 2014
This is version 93 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

Helicobacter pylori

Helicobacter pylori (strain 26695): entries and gene names