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E4RNH1 (E4RNH1_HALSL) Unreviewed, UniProtKB/TrEMBL

Last modified May 1, 2013. Version 18. Feed History...

Clusters with 100%, 90%, 50% identity | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
DNA gyrase subunit B HAMAP-Rule MF_01898
EC=5.99.1.3 HAMAP-Rule MF_01898
Gene names
Name:gyrB HAMAP-Rule MF_01898
Ordered Locus Names:Halsa_0006 EMBL ADQ13506.1
OrganismHalanaerobium sp. (strain sapolanicus) [Complete proteome] [HAMAP] EMBL ADQ13506.1
Taxonomic identifier656519 [NCBI]
Taxonomic lineageBacteria › Firmicutes › Clostridia › Halanaerobiales › Halanaerobiaceae › Halanaerobium

Protein attributes

Sequence length640 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 RuleBase RU003363

Catalytic activity

ATP-dependent breakage, passage and rejoining of double-stranded DNA. HAMAP-Rule MF_01898 RuleBase RU003363 SAAS SAAS011557

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. HAMAP-Rule MF_01898

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. HAMAP-Rule MF_01898

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_01898.

Sequence similarities

Belongs to the type II topoisomerase family. HAMAP-Rule MF_01898 RuleBase RU000380

Contains 1 Toprim domain. HAMAP-Rule MF_01898

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Regions

Domain425 – 539115Toprim By similarity HAMAP-Rule MF_01898

Sites

Metal binding4311Magnesium 1; catalytic By similarity HAMAP-Rule MF_01898
Metal binding5041Magnesium 1; catalytic By similarity HAMAP-Rule MF_01898
Metal binding5041Magnesium 2 By similarity HAMAP-Rule MF_01898
Metal binding5061Magnesium 2 By similarity HAMAP-Rule MF_01898
Site4561Interaction with DNA By similarity HAMAP-Rule MF_01898
Site4591Interaction with DNA By similarity HAMAP-Rule MF_01898

Sequences

Sequence LengthMass (Da)Tools
E4RNH1 [UniParc].

Last modified February 8, 2011. Version 1.
Checksum: 981E5ADD69B03EF9

FASTA64071,969
        10         20         30         40         50         60 
MDFKERSNYE AEHIQVLEGL EAVRKRPGMY IGSTSTEGLH HLVYEVVDNS IDEAMAGYCT 

        70         80         90        100        110        120 
EIIVEIQPGN IIKVKDNGRG IPVENHPKID KPAVEVVMTT LHAGGKFGGE GYKVSGGLHG 

       130        140        150        160        170        180 
VGISVVNALT EWMEVEIAWK DGKVYKQKYE RGVPQHELRA IGSCDSDCTG TTIEFKADPQ 

       190        200        210        220        230        240 
IFEEIDYEYR NLAQRLKELA FLNKGLKIKI IDSRVDETKE DEYQYDGGLV SFVKYLNQSK 

       250        260        270        280        290        300 
KPLYPDPIYL ETEGEEGSLE VAIQYHQGYN SSIFSFANNI NTKEGGTHLS GFKSAITRTF 

       310        320        330        340        350        360 
NDYARKKNIL KDSDDNFKGQ DIREGMTAII SVKLADPQFE GQTKTKLGNS EMRGFVDSAV 

       370        380        390        400        410        420 
SSFLKTFLEE NPKIAKVIVD KALSAARARK AARKARDLTR RKSALTSTAL PGKLADCAKR 

       430        440        450        460        470        480 
QAKDTEVYIV EGDSAGGSAK QGRNREFQAI LPLKGKILNV EKSRLNKILN NDEIRALITA 

       490        500        510        520        530        540 
IGTGVAEEFD INNLRYERII IMTDADIDGA HIRTLLLTFF YRYMRPLLEN GNIYIAQPPL 

       550        560        570        580        590        600 
YKVKKGRKEE YVYNDKALKE LLDEIGRDRV SMQRYKGLGE MNPGQLWDTT MDPDNRILLQ 

       610        620        630        640 
VNIEDAILAD ETFSILMGDK VEPRRKFIQE NAAQVKNLDV

« Hide

References

[1]"Complete sequence of Halanaerobium sp. sapolanicus."
US DOE Joint Genome Institute
Lucas S., Copeland A., Lapidus A., Cheng J.-F., Bruce D., Goodwin L., Pitluck S., Davenport K., Detter J.C., Han C., Tapia R., Land M., Hauser L., Jeffries C., Kyrpides N., Ivanova N., Mikhailova N., Begemann M.B. expand/collapse author list , Mormile M.R., Wall J.D., Elias D.A., Woyke T.
Submitted (NOV-2010) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: sapolanicus.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP002304 Genomic DNA. Translation: ADQ13506.1.
RefSeqYP_003993860.1. NC_014654.1.

3D structure databases

ModBaseSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaADQ13506; ADQ13506; Halsa_0006.
GeneID9967586.
KEGGhas:Halsa_0006.
PATRIC42638495. VBIHalSp157090_0006.

Organism-specific databases

CMRSearch...

Phylogenomic databases

KOK02470.

Enzyme and pathway databases

BioCycHHYD656519:GHYV-6-MONOMER.

Family and domain databases

Gene3D3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
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]
SUPFAMSSF55874. ATP_bd_ATPase. 1 hit.
SSF54211. Ribosomal_S5_D2-typ_fold. 1 hit.
SSF56719. Topo_IIA_cen. 1 hit.
TIGRFAMsTIGR01059. gyrB. 1 hit.
PROSITEPS00177. TOPOISOMERASE_II. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameE4RNH1_HALSL
AccessionPrimary (citable) accession number: E4RNH1
Entry history
Integrated into UniProtKB/TrEMBL: February 8, 2011
Last sequence update: February 8, 2011
Last modified: May 1, 2013
This is version 18 of the entry and version 1 of the sequence. [Complete history]
Entry statusUnreviewed (UniProtKB/TrEMBL)
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info