DNA gyrase subunit B - Halalkalicoccus jeotgali (strain DSM 18796 / CECT 7217 / JCM 14584 / KCTC 4019 / B3)

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D8J639 (D8J639_HALJB) Unreviewed, UniProtKB/TrEMBL

Last modified May 1, 2013. Version 22. History...

Clusters with 100%, 90%, 50% identity |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info Customize order

Names and origin

Protein names

Recommended name:
DNA gyrase subunit B RuleBase RU003363 HAMAP-Rule MF_01898
EC=5.99.1.3 RuleBase RU003363 HAMAP-Rule MF_01898

Gene names

Name:	gyrB HAMAP-Rule MF_01898 EMBL ELY37219.1
Ordered Locus Names:	HacjB3_11870 EMBL ADJ15757.1
ORF Names:	C497_10758 EMBL ELY37219.1

Organism

Halalkalicoccus jeotgali (strain DSM 18796 / CECT 7217 / JCM 14584 / KCTC 4019 / B3) [Complete proteome] [HAMAP] EMBL ADJ15757.1

Taxonomic identifier

795797 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Halobacteria › Halobacteriales › Halobacteriaceae › Halalkalicoccus ›

Protein attributes

Sequence length	635 AA.
Sequence status	Complete.
Protein existence	Inferred 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. RuleBase RU003363 HAMAP-Rule MF_01898
Catalytic activity	ATP-dependent breakage, passage and rejoining of double-stranded DNA. RuleBase RU003363 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. 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. RuleBase RU000380 HAMAP-Rule MF_01898 Contains 1 Toprim domain. HAMAP-Rule MF_01898

Ontologies

Keywords
Cellular component	Cytoplasm HAMAP-Rule MF_01898
Ligand	ATP-binding RuleBase RU000380 HAMAP-Rule MF_01898 DNA-binding HAMAP-Rule MF_01898 Magnesium HAMAP-Rule MF_01898 Metal-binding HAMAP-Rule MF_01898 Nucleotide-binding
Molecular function	Isomerase Topoisomerase RuleBase RU000380 HAMAP-Rule MF_01898
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	DNA topological change Inferred from electronic annotation. Source: InterPro DNA-dependent DNA replication Inferred from electronic annotation. Source: HAMAP
Cellular_component	chromosome Inferred from electronic annotation. Source: InterPro cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP DNA topoisomerase type II (ATP-hydrolyzing) activity Inferred from electronic annotation. Source: HAMAP metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Regions

Domain

421 – 535

115

Toprim By similarity HAMAP-Rule MF_01898

Sites

Metal binding

427

Magnesium 1; catalytic By similarity HAMAP-Rule MF_01898

Metal binding

500

Magnesium 1; catalytic By similarity HAMAP-Rule MF_01898

Metal binding

500

Magnesium 2 By similarity HAMAP-Rule MF_01898

Metal binding

502

Magnesium 2 By similarity HAMAP-Rule MF_01898

Site

452

Interaction with DNA By similarity HAMAP-Rule MF_01898

Site

455

Interaction with DNA By similarity HAMAP-Rule MF_01898

Sequences

Sequence

Length

Mass (Da)

Tools

D8J639 [UniParc].

Last modified October 5, 2010. Version 1.
Checksum: DF5504DA7649F834
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FASTA

635

70,752

        10         20         30         40         50         60 
MSEQSEYGAG QIQVLEGLEA VRTRPAMYIG STDSRGLHHL VYEVVDNAID EALAGYCDTI 

        70         80         90        100        110        120 
GVTIHEDGSV SVADDGRGIP VDTHAEYDRP AVEVIMTVLH AGGKFDSKSY QVSGGLHGVG 

       130        140        150        160        170        180 
VSVVNALSER LEVEIRRDGA VWHHRFDHGA PEGDIERVRD LEAEEETGTT VRFWPDDGIF 

       190        200        210        220        230        240 
EDREFVVSTL ENRIRELAFL NPGVEITLAD ERDETESTFQ YDGGIREFVE YLNETRTPLH 

       250        260        270        280        290        300 
EDVLYLDDEE RNIQVEVAMQ ATDELQGSIH AFANNINTRE GGTHLTGFKT ALTRVVNDYA 

       310        320        330        340        350        360 
NGEGLLDEID ENLRGEDIRE GLTAVISIKH PDPQFEGQTK TKLGNSEVRG IVESAVHEGL 

       370        380        390        400        410        420 
GTYFEEHPDT AQAVVRKAVE AAKARKAAKQ AEELTRRKSA LESTALPGKL ADCQTRDPNE 

       430        440        450        460        470        480 
AELFVVEGDS AGGSAKQGRN RKFQAILPLK GKILNVEKHR LDRILENNEI RDLITAVGAG 

       490        500        510        520        530        540 
VGEEFDIDEA RYKRIVIMTD ADVDGAHIRT LLLTLFYRHM RPLIEAGYVY AAQPPLYRLR 

       550        560        570        580        590        600 
YGGETREAMA EAEREAIIDE YGAPDRIQRF KGLGEMNPDQ LWETTMNPDN RVLKRVTVED 

       610        620        630 
AAAADRMFSV LMGDAVEPRK QFIQEHAKEA EWVDI

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete genome sequence of Halalkalicoccus jeotgali B3(T), an extremely halophilic archaeon." Roh S.W., Nam Y.D., Nam S.H., Choi S.H., Park H.S., Bae J.W. J. Bacteriol. 192:4528-4529(2010) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: B3 EMBL ADJ15757.1 and DSM 18796 / CECT 7217 / JCM 14584 / KCTC 4019 / B3.
[2]	Becker E.A., Seitzer P., Tritt A., Larsen D., Yao A., Wu D., Darling A., Eisen J.A., Facciotti M.T. Submitted (NOV-2012) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE. Strain: B3 EMBL ELY37219.1.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP002062 Genomic DNA. Translation: ADJ15757.1. AOHV01000027 Genomic DNA. Translation: ELY37219.1.
RefSeq	YP_003737549.1. NC_014297.1.
3D structure databases
ProteinModelPortal	D8J639.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ADJ15757; ADJ15757; HacjB3_11870.
GeneID	9420188.
KEGG	hje:HacjB3_11870.
Organism-specific databases
CMR	Search...
Phylogenomic databases
HOGENOM	HOG000075154.
KO	K02470.
OMA	IFETTEF.
Family and domain databases
Gene3D	3.30.230.10. 1 hit. 3.30.565.10. 1 hit. 3.40.50.670. 1 hit.
HAMAP	MF_01898. GyrB.
InterPro	IPR002288. 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]
Pfam	PF00204. DNA_gyraseB. 1 hit. PF00986. DNA_gyraseB_C. 1 hit. PF02518. HATPase_c. 1 hit. PF01751. Toprim. 1 hit. [Graphical view]
PRINTS	PR00418. TPI2FAMILY.
SMART	SM00387. HATPase_c. 1 hit. SM00433. TOP2c. 1 hit. [Graphical view]
SUPFAM	SSF55874. ATP_bd_ATPase. 1 hit. SSF54211. Ribosomal_S5_D2-typ_fold. 1 hit. SSF56719. Topo_IIA_cen. 1 hit.
TIGRFAMs	TIGR01059. gyrB. 1 hit.
PROSITE	PS00177. TOPOISOMERASE_II. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

D8J639_HALJB

Accession

Primary (citable) accession number: D8J639

Entry history

Integrated into UniProtKB/TrEMBL:	October 5, 2010
Last sequence update:	October 5, 2010
Last modified:	May 1, 2013
This is version 22 of the entry and version 1 of the sequence. [Complete history]

Entry status

Unreviewed (UniProtKB/TrEMBL)

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Regions

Sites

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Family and domain databases

Entry information