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Q94BZ7 (GYRBM_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 69. 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·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA gyrase subunit B, mitochondrial
EC=5.99.1.3
Gene names
Name:GYRBM
Ordered Locus Names:At5g04130
ORF Names:F21E1_50
OrganismArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length732 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner. Ref.4

Catalytic activity

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

Subunit structure

Made up of two chains. The A chain is responsible for DNA breakage and rejoining; the B chain catalyzes ATP hydrolysis By similarity.

Subcellular location

Mitochondrion Ref.4.

Sequence similarities

Belongs to the type II topoisomerase family.

Contains 1 Toprim domain.

Sequence caution

The sequence CAC05495.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
   Cellular componentMitochondrion
   Coding sequence diversityAlternative splicing
   DomainTransit peptide
   LigandATP-binding
Nucleotide-binding
   Molecular functionIsomerase
Topoisomerase
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological processDNA topological change

Inferred from electronic annotation. Source: InterPro

   Cellular componentchromosome

Inferred from electronic annotation. Source: InterPro

mitochondrion

Inferred from direct assay. Source: TAIR

   Molecular functionATP binding

Inferred from electronic annotation. Source: UniProtKB-KW

DNA topoisomerase (ATP-hydrolyzing) activity

Inferred from electronic annotation. Source: EC

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q94BZ7-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Isoform 2 (identifier: Q94BZ7-2)

The sequence of this isoform differs from the canonical sequence as follows:
     514-519: EIFIVE → GMYWPS
     520-732: Missing.
Note: Derived from EST data. May be due to an intron retention. No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Transit peptide1 – ?Mitochondrion Potential
Chain? – 732DNA gyrase subunit B, mitochondrialPRO_0000247949

Regions

Domain513 – 618106Toprim

Natural variations

Alternative sequence514 – 5196EIFIVE → GMYWPS in isoform 2.
VSP_020235
Alternative sequence520 – 732213Missing in isoform 2.
VSP_020236

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified December 1, 2001. Version 1.
Checksum: 059EF1601E779189

FASTA73281,053
        10         20         30         40         50         60 
MALLQRASYL RLYYLRLMGS RPRLFSSSLS PALHRHSSTL SSPPFSSPSP SFRLKFQLTS 

        70         80         90        100        110        120 
VLSQRLIQRN AISSRFLSTE ASQETTTSKG YSSEQIQVLE GLDPVRKRPG MYIGSTGSRG 

       130        140        150        160        170        180 
LHHLVYEILD NAIDEAQAGY ASKVDVVLHA DGSVSVVDNG RGIPTDLHPA TKKSSLETVL 

       190        200        210        220        230        240 
TVLHAGGKFG GTSSGYSVSG GLHGVGLSVV NALSEALEVS VWRDGMEHKQ NYSRGKPITT 

       250        260        270        280        290        300 
LTCRVLPLES KGTKGTSIRF WPDKEVFTTA IEFDHNTIAG RIRELAFLNP KVTISLKKED 

       310        320        330        340        350        360 
DDPEKTQYSE YSFAGGLTEY VSWLNTDKNP IHDVLGFRRE INGATVDVAL QWCSDAYSDT 

       370        380        390        400        410        420 
MLGYANSIRT IDGGTHIEGV KASLTRTLNT LAKKSKTVKE KDISLSGEHV REGLTCIVSV 

       430        440        450        460        470        480 
KVPNPEFEGQ TKTRLGNPEV RKIVDQSVQE YLTEFLELHP DILESIISKS LNAYKAALAA 

       490        500        510        520        530        540 
KRARELVRSK SVLKSSSLPG KLADCSSTDP EVSEIFIVEG DSAGGSAKQG RDRRFQAILP 

       550        560        570        580        590        600 
LRGKILNIER KDEAAMYKNE EIQNLILGLG LGVKGEDFKK ENLRYHKIII LTDADVDGAH 

       610        620        630        640        650        660 
IRTLLLTFFF RYQRALFDAG CIYVGVPPLF KVERGKNAQY CYDDADLKKI TSNFPANASY 

       670        680        690        700        710        720 
NIQRFKGLGE MMPEQLWETT MNPETRILKQ LVVDDIAEAN MTFSSLMGAR VDVRKELIKN 

       730 
AATRINLQRL DI

« Hide

Isoform 2 [UniParc].

Checksum: 47217FA1BCB10B1D
Show »

FASTA51956,873

References

« Hide 'large scale' references
[1]"Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana."
Tabata S., Kaneko T., Nakamura Y., Kotani H., Kato T., Asamizu E., Miyajima N., Sasamoto S., Kimura T., Hosouchi T., Kawashima K., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Naruo K. expand/collapse author list , Okumura S., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Sato S., de la Bastide M., Huang E., Spiegel L., Gnoj L., O'Shaughnessy A., Preston R., Habermann K., Murray J., Johnson D., Rohlfing T., Nelson J., Stoneking T., Pepin K., Spieth J., Sekhon M., Armstrong J., Becker M., Belter E., Cordum H., Cordes M., Courtney L., Courtney W., Dante M., Du H., Edwards J., Fryman J., Haakensen B., Lamar E., Latreille P., Leonard S., Meyer R., Mulvaney E., Ozersky P., Riley A., Strowmatt C., Wagner-McPherson C., Wollam A., Yoakum M., Bell M., Dedhia N., Parnell L., Shah R., Rodriguez M., Hoon See L., Vil D., Baker J., Kirchoff K., Toth K., King L., Bahret A., Miller B., Marra M.A., Martienssen R., McCombie W.R., Wilson R.K., Murphy G., Bancroft I., Volckaert G., Wambutt R., Duesterhoeft A., Stiekema W., Pohl T., Entian K.-D., Terryn N., Hartley N., Bent E., Johnson S., Langham S.-A., McCullagh B., Robben J., Grymonprez B., Zimmermann W., Ramsperger U., Wedler H., Balke K., Wedler E., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Weitzenegger T., Bothe G., Rose M., Hauf J., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Villarroel R., Gielen J., Ardiles W., Bents O., Lemcke K., Kolesov G., Mayer K.F.X., Rudd S., Schoof H., Schueller C., Zaccaria P., Mewes H.-W., Bevan M., Fransz P.F.
Nature 408:823-826(2000) [PubMed: 11130714] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[2]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[3]"Empirical analysis of transcriptional activity in the Arabidopsis genome."
Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. expand/collapse author list , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
Science 302:842-846(2003) [PubMed: 14593172] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Strain: cv. Columbia.
[4]"Arabidopsis thaliana DNA gyrase is targeted to chloroplasts and mitochondria."
Wall M.K., Mitchenall L.A., Maxwell A.
Proc. Natl. Acad. Sci. U.S.A. 101:7821-7826(2004) [PubMed: 15136745] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		AL391716 Genomic DNA. Translation: CAC05495.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED90701.1.
CP002688 Genomic DNA. Translation: AED90702.1.
AY039521 mRNA. Translation: AAK62578.1.
AY142041 mRNA. Translation: AAM98305.1.
IPIIPI00527008.
IPI00537479.
RefSeqNP_568133.1. NM_120495.2.
NP_850762.1. NM_180431.1.
UniGeneAt.10083.

3D structure databases

ProteinModelPortalQ94BZ7.
SMRQ94BZ7. Positions 95-487, 500-729.
ModBaseSearch...

Protein-protein interaction databases

STRINGQ94BZ7.

Proteomic databases

PRIDEQ94BZ7.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT5G04130.1; AT5G04130.1; AT5G04130.
GeneID830291.
GenomeReviewsGene locus AT5G04130 in contig BA000015_GR.
KEGGath:AT5G04130.
NMPDRfig|3702.1.peg.22506.

Organism-specific databases

GeneFarm4066. 413.
TAIRAt5g04130.

Phylogenomic databases

eggNOGKOG0355.
GeneTreeEPGT00070000030652.
HOGENOMHBG304889.
InParanoidQ94BZ7.
OMAIGKNEYN.
PhylomeDBQ94BZ7.
ProtClustDBCLSN2689450.

Gene expression databases

GenevestigatorQ94BZ7.
GermOnlineAT5G04130. Arabidopsis thaliana.

Family and domain databases

InterProIPR003594. ATPase-like_ATP-bd.
IPR011557. GyrB.
IPR020568. Ribosomal_S5_D2-typ_fold.
IPR014721. Ribosomal_S5_D2-typ_fold_subgr.
IPR001241. Topo_IIA.
IPR013759. Topo_IIA_B/N_ab.
IPR002288. Topo_IIA_B_C.
IPR013506. Topo_IIA_bsu_dom2.
IPR013760. Topo_IIA_cen.
IPR018522. TopoIIA_CS.
IPR006171. Toprim_domain.
[Graphical view]
Gene3DG3DSA:3.30.565.10. ATP_bd_ATPase. 1 hit.
G3DSA:3.30.230.10. Ribosomal_S5_D2-type_fold. 1 hit.
G3DSA:3.40.50.670. Topo_IIA_B/N_ab. 1 hit.
KOK02470.
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 nameGYRBM_ARATH
AccessionPrimary (citable) accession number: Q94BZ7
Secondary accession number(s): Q3E9M5, Q9FYE7
Entry history
Integrated into UniProtKB/Swiss-Prot: July 25, 2006
Last sequence update: December 1, 2001
Last modified: January 25, 2012
This is version 69 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents