GYRA_ORYSJ
ID GYRA_ORYSJ Reviewed; 939 AA.
AC Q7XZF7; Q75HI0;
DT 25-JUL-2006, integrated into UniProtKB/Swiss-Prot.
DT 25-JUL-2006, sequence version 2.
DT 25-MAY-2022, entry version 110.
DE RecName: Full=Probable DNA gyrase subunit A, chloroplastic/mitochondrial;
DE EC=5.6.2.2 {ECO:0000250|UniProtKB:P0AES4};
DE Flags: Precursor;
GN Name=GYRA; OrderedLocusNames=Os03g0812000, LOC_Os03g59750;
GN ORFNames=OSJNBa0024F18.37, OSJNBb0033J23.17;
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16109971; DOI=10.1101/gr.3869505;
RG The rice chromosome 3 sequencing consortium;
RA Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B.,
RA Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T.,
RA Fadrosh D., Bera J., Weaver B., Jin S., Johri S., Reardon M., Webb K.,
RA Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T.,
RA Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R.,
RA Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J.,
RA Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S.,
RA Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M.,
RA Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M.,
RA Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L.,
RA O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R.,
RA Jin W., Lee H.R., Jiang J., Jackson S.;
RT "Sequence, annotation, and analysis of synteny between rice chromosome 3
RT and diverged grass species.";
RL Genome Res. 15:1284-1291(2005).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 502-939.
RC STRAIN=cv. Nipponbare;
RX PubMed=12869764; DOI=10.1126/science.1081288;
RG The rice full-length cDNA consortium;
RT "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT japonica rice.";
RL Science 301:376-379(2003).
CC -!- FUNCTION: A type II topoisomerase that negatively supercoils closed
CC circular double-stranded DNA in an ATP-dependent manner.
CC {ECO:0000250|UniProtKB:P0AES4}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=ATP-dependent breakage, passage and rejoining of double-
CC stranded DNA.; EC=5.6.2.2; Evidence={ECO:0000250|UniProtKB:P0AES4};
CC -!- SUBUNIT: Made up of two chains. The A chain is responsible for DNA
CC breakage and rejoining; the B chain catalyzes ATP hydrolysis.
CC {ECO:0000250|UniProtKB:Q9CAF6}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast
CC {ECO:0000250|UniProtKB:Q9CAF6}. Mitochondrion
CC {ECO:0000250|UniProtKB:Q9CAF6}. Nucleus {ECO:0000250|UniProtKB:Q9CAF6}.
CC -!- SIMILARITY: Belongs to the type II topoisomerase GyrA/ParC subunit
CC family. {ECO:0000250|UniProtKB:P0AES4}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAP73860.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=AAR89868.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AC135594; AAR89868.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AC137507; AAP73860.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP014959; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; AK059281; -; NOT_ANNOTATED_CDS; mRNA.
DR AlphaFoldDB; Q7XZF7; -.
DR SMR; Q7XZF7; -.
DR STRING; 4530.OS03T0812000-01; -.
DR PaxDb; Q7XZF7; -.
DR PRIDE; Q7XZF7; -.
DR eggNOG; KOG0355; Eukaryota.
DR InParanoid; Q7XZF7; -.
DR Proteomes; UP000000763; Chromosome 3.
DR Proteomes; UP000059680; Chromosome 3.
DR Genevisible; Q7XZF7; OS.
DR GO; GO:0009507; C:chloroplast; IEA:UniProtKB-SubCell.
DR GO; GO:0005694; C:chromosome; IEA:InterPro.
DR GO; GO:0005737; C:cytoplasm; IBA:GO_Central.
DR GO; GO:0009330; C:DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex; IBA:GO_Central.
DR GO; GO:0005739; C:mitochondrion; IEA:UniProtKB-SubCell.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0005524; F:ATP binding; IBA:GO_Central.
DR GO; GO:0003677; F:DNA binding; IBA:GO_Central.
DR GO; GO:0003918; F:DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity; IEA:UniProtKB-EC.
DR GO; GO:0006265; P:DNA topological change; IBA:GO_Central.
DR CDD; cd00187; TOP4c; 1.
DR Gene3D; 1.10.268.10; -; 1.
DR Gene3D; 2.120.10.90; -; 1.
DR Gene3D; 3.90.199.10; -; 1.
DR HAMAP; MF_01897; GyrA; 1.
DR InterPro; IPR005743; GyrA.
DR InterPro; IPR006691; GyrA/parC_rep.
DR InterPro; IPR035516; Gyrase/topoIV_suA_C.
DR InterPro; IPR013760; Topo_IIA-like_dom_sf.
DR InterPro; IPR013758; Topo_IIA_A/C_ab.
DR InterPro; IPR013757; Topo_IIA_A_a_sf.
DR InterPro; IPR002205; Topo_IIA_dom_A.
DR Pfam; PF03989; DNA_gyraseA_C; 6.
DR Pfam; PF00521; DNA_topoisoIV; 1.
DR SMART; SM00434; TOP4c; 1.
DR SUPFAM; SSF101904; SSF101904; 1.
DR SUPFAM; SSF56719; SSF56719; 1.
PE 2: Evidence at transcript level;
KW ATP-binding; Chloroplast; DNA-binding; Isomerase; Mitochondrion;
KW Nucleotide-binding; Nucleus; Plastid; Reference proteome; Topoisomerase;
KW Transit peptide.
FT TRANSIT 1..?
FT /note="Chloroplast and mitochondrion"
FT /evidence="ECO:0000255"
FT CHAIN ?..939
FT /note="Probable DNA gyrase subunit A,
FT chloroplastic/mitochondrial"
FT /id="PRO_0000247947"
FT REGION 46..73
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 906..939
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOTIF 605..611
FT /note="GyrA-box"
FT /evidence="ECO:0000250|UniProtKB:P0AES4"
FT COMPBIAS 910..924
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 925..939
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT ACT_SITE 196
FT /note="O-(5'-phospho-DNA)-tyrosine intermediate"
FT /evidence="ECO:0000250|UniProtKB:P0AES4"
SQ SEQUENCE 939 AA; 103168 MW; 88439FE6D72B88E9 CRC64;
MALSAALRLP LPRLLWGPTG SLLAAAAAAS RRRAAVVAVP AVRFLSSSSS SSDGSRSVQP
LRAGRDERAA AGEGGAAVKE RVVPVELHKE ATEAYMAYAM SVLLGRALPD VRDGLKPVHR
RILYAMHEMG LASRRPFRKC ARVVGEVLGK FHPHGDSAVY ETLVRMAQDF SMRYPLVQGH
GNFGSIDADP PAAMRYTECR LDVGCFFFLD IDAIFIIGQV DFVPNFDNSQ KEPSLLPARV
PSLLLNGSSG IAVGMATNIP PHNLGELVDV LSVMIENPEA TLQELLECMP GPDFPTGGTI
VGNQGILEAY KTGRGRVVMR GKTDIETIDV KSKRSAIIIK EVPYQTNKST LVERIAELVE
EKVLEGISDI RDESDRSGMR VVIELKRGAD PAIVLNNLYR HTALQSSFSC NMVAILDGQP
KLMGLKEILQ AFIDFRCSVI ERRARFKLSQ ALERKHIVEG IVIGLDNLDS VIQIIRGTSN
HAMARESLIK EFGLSDKQAE ALLDITLRKL TSLERKKFVD EAKSLSEEIS KLNELLSNKK
LIFQLILQEA TDLKNKFATP RRSFIEDSAS TEVDDLDIIP NEEMLLILSE KGYVKRMKPN
TFNLQNRGTI GKSVGKMRMN DNTSDFIVCQ THDHVLYFSD KGIVYSARAY KIPECTRAAT
GTPLVQLLSL SDGERITSIV PVNEFGEDQY LVMLTVNGYI KKVPLNAFSA IRTSGIISIQ
LAPGDELKWV RRCGDDDLVA LASQNGMVIV NTCNKLRALG RKTRGVLAMK LKEGDKMASM
DIIPATSHNM PETYSRVRDL SPPWLLFIAD NGIGKRVPLN AFRQGNFNRV GLQGYKLPPD
CSLAAVFVVG FSLTDDGESD EQVVLVSQSG TVNRIKVKDI SIRSRSARGV ILMRLEHAGK
IQSASLISAA EEEEEQDPES ASLISEAEEP EKQDPEVSA
