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Protein

DNA gyrase subunit B

Gene

gyrB

Organism
Archaeoglobus profundus (strain DSM 5631 / JCM 9629 / NBRC 100127 / Av18)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-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

Catalytic activityi

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

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionIsomerase, TopoisomeraseUniRule annotation
LigandATP-bindingUniRule annotation, Nucleotide-binding

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:Arcpr_0091Imported
OrganismiArchaeoglobus profundus (strain DSM 5631 / JCM 9629 / NBRC 100127 / Av18)Imported
Taxonomic identifieri572546 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaArchaeoglobiArchaeoglobalesArchaeoglobaceaeArchaeoglobus
Proteomesi
  • UP000001901 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotation

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

Protein-protein interaction databases

STRINGi572546.Arcpr_0091.

Structurei

3D structure databases

ProteinModelPortaliD2RFU2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini419 – 533ToprimInterPro annotationAdd BLAST115

Sequence similaritiesi

Belongs to the type II topoisomerase family.UniRule annotation

Phylogenomic databases

eggNOGiarCOG04371. Archaea.
COG0187. LUCA.
HOGENOMiHOG000075156.
KOiK02470.
OMAiIKNMITA.

Family and domain databases

CDDicd03366. TOPRIM_TopoIIA_GyrB. 1 hit.
Gene3Di3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
HAMAPiMF_01898. GyrB. 1 hit.
InterProiView protein in InterPro
IPR002288. DNA_gyrase_B_C.
IPR011557. GyrB.
IPR003594. HATPase_C.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013760. Topo_IIA-like_dom.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR006171. TOPRIM_domain.
IPR034160. TOPRIM_GyrB.
PfamiView protein in Pfam
PF00204. DNA_gyraseB. 1 hit.
PF00986. DNA_gyraseB_C. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
PRINTSiPR00418. TPI2FAMILY.
SMARTiView protein in SMART
SM00387. HATPase_c. 1 hit.
SM00433. TOP2c. 1 hit.
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 1 hit.
TIGRFAMsiTIGR01059. gyrB. 1 hit.
PROSITEiView protein in PROSITE
PS50880. TOPRIM. 1 hit.

Sequencei

Sequence statusi: Complete.

D2RFU2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPISSTFLAM SDYTAEAIEV LDDIQAVRKR PGMYVGSTGS RGFHHLLWEI
60 70 80 90 100
VDNSIDEALA GYCNRIVVTL HKDGSASVED NGRGIPVEEH PIFKKPALEI
110 120 130 140 150
VMTKLHAGGK FSKKAYKVSG GLHGVGLSVV NALSEWLEVW VKRNGKIYYQ
160 170 180 190 200
RYERGKPVTP LKVVGETKET GTKIRFKPDP EIFEVKEFDY DVVAERLREL
210 220 230 240 250
AFLNKGLRIK LIDERTGKVK EFYSEEGIVG FVKYLNKGKD VITDVVYISG
260 270 280 290 300
EKNGINVEIA FQFTNEDFEN LLAFANNIHT IEGGTHVSGF RAGLTRAINE
310 320 330 340 350
YGKKHVKKFT PISGSDIREG LTAVLSVKVP EPQFEGQTKT KLTNSDVKTV
360 370 380 390 400
VESLVYNNFL RWLEEHPSEA QRIIEKCLLA MKAREMARRA RELVKRKAEI
410 420 430 440 450
SLTLPGKLAD CSSKNVEERE LFIVEGESAG GSAKQARDRR FQAVLPIRGK
460 470 480 490 500
IINVEKAGML RALKNEEIKA IASAIGGGIG KDFDLSKVRY GKIIIMTDAD
510 520 530 540 550
VDGAHIRTLL LTFFYRYMRP LIEAGMVYIA LPPLYRVKKG DKVYYVYSEK
560 570 580 590 600
ELRDVLKKIG KAEVQRFKGL GEMNPEQLWE TAMNPKTRKL VKVTIEDALI
610 620 630
AEKMFRILMG ENVDERKEFI LNHAKEVKNL DV
Length:632
Mass (Da):71,239
Last modified:March 2, 2010 - v1
Checksum:iFE241AE80D8F7551
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001857 Genomic DNA. Translation: ADB57167.1.
RefSeqiWP_012939503.1. NC_013741.1.

Genome annotation databases

EnsemblBacteriaiADB57167; ADB57167; Arcpr_0091.
GeneIDi8738737.
KEGGiapo:Arcpr_0091.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001857 Genomic DNA. Translation: ADB57167.1.
RefSeqiWP_012939503.1. NC_013741.1.

3D structure databases

ProteinModelPortaliD2RFU2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi572546.Arcpr_0091.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADB57167; ADB57167; Arcpr_0091.
GeneIDi8738737.
KEGGiapo:Arcpr_0091.

Phylogenomic databases

eggNOGiarCOG04371. Archaea.
COG0187. LUCA.
HOGENOMiHOG000075156.
KOiK02470.
OMAiIKNMITA.

Family and domain databases

CDDicd03366. TOPRIM_TopoIIA_GyrB. 1 hit.
Gene3Di3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
HAMAPiMF_01898. GyrB. 1 hit.
InterProiView protein in InterPro
IPR002288. DNA_gyrase_B_C.
IPR011557. GyrB.
IPR003594. HATPase_C.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013760. Topo_IIA-like_dom.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR006171. TOPRIM_domain.
IPR034160. TOPRIM_GyrB.
PfamiView protein in Pfam
PF00204. DNA_gyraseB. 1 hit.
PF00986. DNA_gyraseB_C. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
PRINTSiPR00418. TPI2FAMILY.
SMARTiView protein in SMART
SM00387. HATPase_c. 1 hit.
SM00433. TOP2c. 1 hit.
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 1 hit.
TIGRFAMsiTIGR01059. gyrB. 1 hit.
PROSITEiView protein in PROSITE
PS50880. TOPRIM. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiD2RFU2_ARCPA
AccessioniPrimary (citable) accession number: D2RFU2
Entry historyiIntegrated into UniProtKB/TrEMBL: March 2, 2010
Last sequence update: March 2, 2010
Last modified: February 15, 2017
This is version 56 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

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

Keywords - Technical termi

Complete proteome, Reference proteomeImported

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.