Q9CAF6 (GYRA_ARATH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Probable DNA gyrase subunit A, chloroplastic/mitochondrial
EC=5.99.1.3

Gene names

Name:	GYRA
Ordered Locus Names:	At3g10690
ORF Names:	F13M14.2, T7M13.23

Organism

Arabidopsis thaliana (Mouse-ear cress) [Reference proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Viridiplantae › Streptophyta › Streptophytina › Embryophyta › Tracheophyta › Euphyllophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	950 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner. Ref.3
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. Associated with the mediator complex. Ref.4
Subcellular location	Plastid › chloroplast. Mitochondrion. Nucleus Probable Ref.3.
Sequence similarities	Belongs to the topoisomerase GyrA/ParC subunit family.
Sequence caution	The sequence AAF19580.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence AAG51377.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Chloroplast Mitochondrion Nucleus Plastid
Domain	Transit peptide
Ligand	ATP-binding DNA-binding Nucleotide-binding
Molecular function	Isomerase Topoisomerase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA topological change Inferred from Biological aspect of Ancestor. Source: RefGenome DNA-dependent DNA replication Inferred from Biological aspect of Ancestor. Source: RefGenome chromosome segregation Inferred from Biological aspect of Ancestor. Source: RefGenome regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	DNA topoisomerase complex (ATP-hydrolyzing) Inferred from Biological aspect of Ancestor. Source: RefGenome chloroplast Inferred from direct assay PubMed 15028209PubMed 18431481. Source: TAIR chromosome Inferred from electronic annotation. Source: InterPro mediator complex Inferred from direct assay Ref.4. Source: UniProtKB mitochondrion Inferred from direct assay PubMed 14671022. Source: TAIR nucleoid Inferred from direct assay PubMed 16326926. Source: TAIR
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA topoisomerase type II (ATP-hydrolyzing) activity Inferred from Biological aspect of Ancestor. Source: RefGenome
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Transit peptide	1 – ?		Chloroplast and mitochondrion
	Chain	? – 950		Probable DNA gyrase subunit A, chloroplastic/mitochondrial		PRO_0000247945
Sites
	Active site	215	1	O-(5'-phospho-DNA)-tyrosine intermediate By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q9CAF6 [UniParc]. Last modified July 25, 2006. Version 2. Checksum: 3998C233EA512797	FASTA	950	104,538
	10 20 30 40 50 60 MTPVLCHSTA SIPNPNSLMS LSSTLRLSSS LLRRSFFRFP LTDPLCRLRR TEPSATRFFS 70 80 90 100 110 120 SRTPRSGKFV VGAGKRGDEQ VKEESGANNG GLVVSGDESR IVPFELHKEA TESYMSYALS 130 140 150 160 170 180 VLLGRALPDV RDGLKPVHRR ILFAMHELGM SSKKPYKKCA RVVGEVLGKF HPHGDTAVYD 190 200 210 220 230 240 SLVRMAQSFS LRCPLIQGHG NFGSIDADPP AAMRYTECRL DPLAEAVLLS DLDQDTVDFV 250 260 270 280 290 300 ANFDNSQKEP AVLPARLPAL LLNGASGIAV GMATNIPPHN LGELVDVLCA LIHNPEATLQ 310 320 330 340 350 360 ELLEYMPAPD FPTGGIIMGN LGVLDAYRTG RGRVVVRGKA EVELLDPKTK RNAVIITEIP 370 380 390 400 410 420 YQTNKATLVQ KIAELVENKT LEGISDIRDE SDRNGMRVVI ELKRGGDPAL VLNNLYRHTA 430 440 450 460 470 480 LQSSFSCNMV GICDGEPKLM GLKELLQAFI DFRCSVVERR ARFKLSHAQQ RKHIIEGIVV 490 500 510 520 530 540 GLDNVDEVIE LITKASSHSS ATAALQSEYG LSEKQAEAIL EITLRRLTAL ERKKFTDESS 550 560 570 580 590 600 SLTEQITKLE QLLSTRTNIL KLIEQEAIEL KDRFSSPRRS MLEDSDSGDL EDIDVIPNEE 610 620 630 640 650 660 MLMAVSEKGY VKRMKADTFN LQHRGTIGKS VGKLRVDDAM SDFLVCHAHD HVLFFSDRGI 670 680 690 700 710 720 VYSTRAYKIP ECSRNAAGTP LVQILSMSEG ERVTSIVPVS EFAEDRYLLM LTVNGCIKKV 730 740 750 760 770 780 SLKLFSGIRS TGIIAIQLNS GDELKWVRCC SSDDLVAMAS QNGMVALSTC DGVRTLSRNT 790 800 810 820 830 840 KGVTAMRLKN EDKIASMDII PASLRKDMEE KSEDASLVKQ STGPWLLFVC ENGYGKRVPL 850 860 870 880 890 900 SSFRRSRLNR VGLSGYKFAE DDRLAAVFVV GYSLAEDGES DEQVVLVSQS GTVNRIKVRD 910 920 930 940 950 ISIQSRRARG VILMRLDHAG KIQSASLISA ADEEETEGTL SNEAVEAVSL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana." Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F. , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S. Nature 408:820-822(2000) [PubMed] [Europe PMC] [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]	"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] [Europe PMC] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION.
[4]	"Purification of a plant mediator from Arabidopsis thaliana identifies PFT1 as the Med25 subunit." Baeckstroem S., Elfving N., Nilsson R., Wingsle G., Bjoerklund S. Mol. Cell 26:717-729(2007) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, SUBUNIT.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AC011560 Genomic DNA. Translation: AAG51377.1. Sequence problems. AC011708 Genomic DNA. Translation: AAF19580.1. Sequence problems. CP002686 Genomic DNA. Translation: AEE74943.1.
IPI	IPI00544444.
RefSeq	NP_187680.2. NM_111905.2.
UniGene	At.39883.
3D structure databases
ProteinModelPortal	Q9CAF6.
SMR	Q9CAF6. Positions 117-915.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9CAF6. 1 interaction.
STRING	3702.AT3G10690.1-P.
Proteomic databases
PaxDb	Q9CAF6.
PRIDE	Q9CAF6.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT3G10690.1; AT3G10690.1; AT3G10690.
GeneID	820238.
KEGG	ath:AT3G10690.
Organism-specific databases
GeneFarm	2654. 246.
TAIR	At3g10690.
Phylogenomic databases
eggNOG	COG0188.
HOGENOM	HOG000076278.
InParanoid	Q9CAF6.
KO	K02469.
OMA	IAQEDVV.
PhylomeDB	Q9CAF6.
ProtClustDB	CLSN2690844.
Gene expression databases
Genevestigator	Q9CAF6.
GermOnline	AT3G10690. Arabidopsis thaliana.
Family and domain databases
Gene3D	3.30.1360.40. 1 hit. 3.90.199.10. 2 hits.
InterPro	IPR024946. Arg_repress_C-like. IPR005743. GyrA. IPR006691. GyrA/parC_pinwhl. IPR002205. Topo_IIA_A/C. IPR013758. Topo_IIA_A/C_ab. IPR013760. Topo_IIA_like_dom. [Graphical view]
Pfam	PF03989. DNA_gyraseA_C. 6 hits. PF00521. DNA_topoisoIV. 1 hit. [Graphical view]
SMART	SM00434. TOP4c. 1 hit. [Graphical view]
SUPFAM	SSF56719. Topo_IIA_cen. 1 hit.
TIGRFAMs	TIGR01063. gyrA. 1 hit.
ProtoNet	Search...

Entry information

Entry name

GYRA_ARATH

Accession

Primary (citable) accession number: Q9CAF6
Secondary accession number(s): Q9SG75

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 25, 2006
Last sequence update:	July 25, 2006
Last modified:	May 1, 2013
This is version 86 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program