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D2RFU2

- D2RFU2_ARCPA

UniProt

D2RFU2 - D2RFU2_ARCPA

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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: 3 out of 5- Protein inferred from homologyi

Functioni

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.UniRule annotation

Catalytic activityi

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

Cofactori

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+.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi425 – 4251Magnesium 1; catalyticUniRule annotation
Sitei450 – 4501Interaction with DNAUniRule annotation
Sitei453 – 4531Interaction with DNAUniRule annotation
Metal bindingi498 – 4981Magnesium 1; catalyticUniRule annotation
Metal bindingi498 – 4981Magnesium 2UniRule annotation
Metal bindingi500 – 5001Magnesium 2UniRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-HAMAP
  2. DNA binding Source: UniProtKB-HAMAP
  3. DNA topoisomerase type II (ATP-hydrolyzing) activity Source: UniProtKB-HAMAP
  4. magnesium ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. DNA-dependent DNA replication Source: UniProtKB-HAMAP
  2. DNA topological change Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, TopoisomeraseUniRule annotation

Keywords - Ligandi

ATP-bindingUniRule annotation, DNA-bindingUniRule annotation, MagnesiumUniRule annotation, Metal-bindingUniRule annotation, Nucleotide-binding

Enzyme and pathway databases

BioCyciAPRO572546:GJI1-93-MONOMER.

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
ProteomesiUP000001901: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. chromosome Source: InterPro
  2. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotation

Interactioni

Subunit structurei

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.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliD2RFU2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini419 – 533115ToprimUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the type II topoisomerase family.UniRule annotation
Contains 1 Toprim domain.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000075156.
KOiK02470.
OMAiHIIIMTD.

Family and domain databases

Gene3Di3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
HAMAPiMF_01898. GyrB.
InterProiIPR002288. 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.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR013760. Topo_IIA_like_dom.
IPR006171. Toprim_domain.
[Graphical view]
PfamiPF00204. DNA_gyraseB. 1 hit.
PF00986. DNA_gyraseB_C. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view]
PRINTSiPR00418. TPI2FAMILY.
SMARTiSM00387. HATPase_c. 1 hit.
SM00433. TOP2c. 1 hit.
[Graphical view]
SUPFAMiSSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 1 hit.
TIGRFAMsiTIGR01059. gyrB. 1 hit.
PROSITEiPS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

D2RFU2 [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:
EMBL
GenBank
DDBJ
Links Updated
CP001857 Genomic DNA. Translation: ADB57167.1.
RefSeqiYP_003399840.1. NC_013741.1.

Genome annotation databases

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

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001857 Genomic DNA. Translation: ADB57167.1 .
RefSeqi YP_003399840.1. NC_013741.1.

3D structure databases

ProteinModelPortali D2RFU2.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ADB57167 ; ADB57167 ; Arcpr_0091 .
GeneIDi 8738737.
KEGGi apo:Arcpr_0091.

Phylogenomic databases

HOGENOMi HOG000075156.
KOi K02470.
OMAi HIIIMTD.

Enzyme and pathway databases

BioCyci APRO572546:GJI1-93-MONOMER.

Family and domain databases

Gene3Di 3.30.230.10. 1 hit.
3.30.565.10. 1 hit.
3.40.50.670. 1 hit.
HAMAPi MF_01898. GyrB.
InterProi 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.
IPR013506. Topo_IIA_bsu_dom2.
IPR013759. Topo_IIA_cen_dom.
IPR013760. Topo_IIA_like_dom.
IPR006171. Toprim_domain.
[Graphical view ]
Pfami PF00204. DNA_gyraseB. 1 hit.
PF00986. DNA_gyraseB_C. 1 hit.
PF02518. HATPase_c. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view ]
PRINTSi PR00418. TPI2FAMILY.
SMARTi SM00387. HATPase_c. 1 hit.
SM00433. TOP2c. 1 hit.
[Graphical view ]
SUPFAMi SSF54211. SSF54211. 1 hit.
SSF55874. SSF55874. 1 hit.
SSF56719. SSF56719. 1 hit.
TIGRFAMsi TIGR01059. gyrB. 1 hit.
PROSITEi PS50880. TOPRIM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 5631 / JCM 9629 / NBRC 100127 / Av18Imported.

Entry informationi

Entry nameiD2RFU2_ARCPA
AccessioniPrimary (citable) accession number: D2RFU2
Entry historyi
Integrated into UniProtKB/TrEMBL: March 2, 2010
Last sequence update: March 2, 2010
Last modified: October 29, 2014
This is version 41 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

External Data

Dasty 3