CYC6_ARATH
ID CYC6_ARATH Reviewed; 175 AA.
AC Q93VA3; Q8SKV3; Q9FL93;
DT 17-JAN-2003, integrated into UniProtKB/Swiss-Prot.
DT 01-DEC-2001, sequence version 1.
DT 03-AUG-2022, entry version 138.
DE RecName: Full=Cytochrome c6, chloroplastic {ECO:0000303|PubMed:12037572};
DE AltName: Full=Cytochrome c-552;
DE Short=Atc6 {ECO:0000303|PubMed:12037572};
DE AltName: Full=Cytochrome c-553;
DE AltName: Full=Cytochrome c553;
DE AltName: Full=Soluble cytochrome f;
DE Flags: Precursor;
GN Name=PETJ; OrderedLocusNames=At5g45040; ORFNames=K21C13.23;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=12037572; DOI=10.1038/417567a;
RA Gupta R., He Z., Luan S.;
RT "Functional relationship of cytochrome c6 and plastocyanin in
RT Arabidopsis.";
RL Nature 417:567-571(2002).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=9679202; DOI=10.1093/dnares/5.2.131;
RA Kaneko T., Kotani H., Nakamura Y., Sato S., Asamizu E., Miyajima N.,
RA Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. V. Sequence
RT features of the regions of 1,381,565 bp covered by twenty one physically
RT assigned P1 and TAC clones.";
RL DNA Res. 5:131-145(1998).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [5]
RP X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS) OF 71-175 IN COMPLEX WITH HEME.
RX PubMed=16777100; DOI=10.1016/j.febslet.2006.05.067;
RA Chida H., Yokoyama T., Kawai F., Nakazawa A., Akazaki H., Takayama Y.,
RA Hirano T., Suruga K., Satoh T., Yamada S., Kawachi R., Unzai S., Nishio T.,
RA Park S.-Y., Oku T.;
RT "Crystal structure of oxidized cytochrome c(6A) from Arabidopsis
RT thaliana.";
RL FEBS Lett. 580:3763-3768(2006).
RN [6]
RP X-RAY CRYSTALLOGRAPHY (1.24 ANGSTROMS) OF 71-175 IN COMPLEX WITH HEME, AND
RP FUNCTION.
RX PubMed=16815443; DOI=10.1016/j.jmb.2006.05.065;
RA Marcaida M.J., Schlarb-Ridley B.G., Worrall J.A.R., Wastl J., Evans T.J.,
RA Bendall D.S., Luisi B.F., Howe C.J.;
RT "Structure of cytochrome c(6A), a novel dithio-cytochrome of Arabidopsis
RT thaliana, and its reactivity with plastocyanin: implications for
RT function.";
RL J. Mol. Biol. 360:968-977(2006).
RN [7]
RP INTERACTION WITH LTO1.
RX PubMed=25412899; DOI=10.2174/0929866521666141121153138;
RA Lu Y., Du J.J., Yu Z.B., Peng J.J., Xu J.N., Wang X.Y.;
RT "Identification of potential targets for thylakoid oxidoreductase
RT AtVKOR/LTO1 in chloroplasts.";
RL Protein Pept. Lett. 22:219-225(2014).
RN [8]
RP X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS) OF 71-175 IN COMPLEX WITH HEME.
RX PubMed=17625855; DOI=10.1021/ja072346g;
RA Worrall J.A.R., Schlarb-Ridley B.G., Reda T., Marcaida M.J., Moorlen R.J.,
RA Wastl J., Hirst J., Bendall D.S., Luisi B.F., Howe C.J.;
RT "Modulation of heme redox potential in the cytochrome c6 family.";
RL J. Am. Chem. Soc. 129:9468-9475(2007).
CC -!- FUNCTION: Functions as an electron carrier between membrane-bound
CC cytochrome b6-f and photosystem I in oxygenic photosynthesis.
CC {ECO:0000269|PubMed:16815443}.
CC -!- SUBUNIT: Monomer (By similarity). Interacts in vitro with LTO1.
CC {ECO:0000250, ECO:0000269|PubMed:25412899}.
CC -!- SUBCELLULAR LOCATION: Plastid, chloroplast thylakoid lumen
CC {ECO:0000305}.
CC -!- PTM: Binds 1 heme c group covalently per subunit.
CC -!- MISCELLANEOUS: Cyt c6 and plastocyanin are functionally equivalent.
CC -!- SIMILARITY: Belongs to the cytochrome c family. PetJ subfamily.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB10887.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AJ438488; CAD27418.1; -; mRNA.
DR EMBL; AB010693; BAB10887.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002688; AED95193.1; -; Genomic_DNA.
DR EMBL; AY057729; AAL15359.1; -; mRNA.
DR EMBL; AF372903; AAK49619.1; -; mRNA.
DR RefSeq; NP_568640.1; NM_123872.3.
DR PDB; 2CE0; X-ray; 1.24 A; A=71-175.
DR PDB; 2CE1; X-ray; 1.40 A; A=71-175.
DR PDB; 2DGE; X-ray; 1.50 A; A/B/C/D=71-175.
DR PDB; 2V07; X-ray; 1.60 A; A=71-175.
DR PDBsum; 2CE0; -.
DR PDBsum; 2CE1; -.
DR PDBsum; 2DGE; -.
DR PDBsum; 2V07; -.
DR AlphaFoldDB; Q93VA3; -.
DR SMR; Q93VA3; -.
DR BioGRID; 19784; 1.
DR STRING; 3702.AT5G45040.1; -.
DR PaxDb; Q93VA3; -.
DR PRIDE; Q93VA3; -.
DR ProteomicsDB; 224700; -.
DR EnsemblPlants; AT5G45040.1; AT5G45040.1; AT5G45040.
DR GeneID; 834535; -.
DR Gramene; AT5G45040.1; AT5G45040.1; AT5G45040.
DR KEGG; ath:AT5G45040; -.
DR Araport; AT5G45040; -.
DR TAIR; locus:2155332; AT5G45040.
DR eggNOG; ENOG502RYDY; Eukaryota.
DR HOGENOM; CLU_101159_4_0_1; -.
DR InParanoid; Q93VA3; -.
DR OMA; GKECMPR; -.
DR OrthoDB; 1253356at2759; -.
DR PhylomeDB; Q93VA3; -.
DR EvolutionaryTrace; Q93VA3; -.
DR PRO; PR:Q93VA3; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q93VA3; baseline and differential.
DR Genevisible; Q93VA3; AT.
DR GO; GO:0009543; C:chloroplast thylakoid lumen; IEA:UniProtKB-SubCell.
DR GO; GO:0009055; F:electron transfer activity; IEA:InterPro.
DR GO; GO:0020037; F:heme binding; IEA:InterPro.
DR GO; GO:0005506; F:iron ion binding; IEA:InterPro.
DR GO; GO:0015979; P:photosynthesis; IEA:UniProtKB-KW.
DR Gene3D; 1.10.760.10; -; 1.
DR InterPro; IPR009056; Cyt_c-like_dom.
DR InterPro; IPR036909; Cyt_c-like_dom_sf.
DR InterPro; IPR023655; Cyt_C6.
DR PANTHER; PTHR34688; PTHR34688; 1.
DR Pfam; PF13442; Cytochrome_CBB3; 1.
DR SUPFAM; SSF46626; SSF46626; 1.
DR PROSITE; PS51007; CYTC; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Chloroplast; Electron transport; Heme; Iron; Metal-binding;
KW Photosynthesis; Plastid; Reference proteome; Thylakoid; Transit peptide;
KW Transport.
FT TRANSIT 1..?
FT /note="Chloroplast"
FT /evidence="ECO:0000255"
FT TRANSIT ?..70
FT /note="Thylakoid"
FT CHAIN 71..175
FT /note="Cytochrome c6, chloroplastic"
FT /id="PRO_0000023849"
FT BINDING 86
FT /ligand="heme c"
FT /ligand_id="ChEBI:CHEBI:61717"
FT /note="covalent"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00433,
FT ECO:0000269|PubMed:16777100, ECO:0000269|PubMed:16815443,
FT ECO:0000269|PubMed:17625855"
FT BINDING 89
FT /ligand="heme c"
FT /ligand_id="ChEBI:CHEBI:61717"
FT /note="covalent"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00433,
FT ECO:0000269|PubMed:16777100, ECO:0000269|PubMed:16815443,
FT ECO:0000269|PubMed:17625855"
FT BINDING 90
FT /ligand="heme c"
FT /ligand_id="ChEBI:CHEBI:61717"
FT /ligand_part="Fe"
FT /ligand_part_id="ChEBI:CHEBI:18248"
FT /note="axial binding residue"
FT BINDING 98..102
FT /ligand="heme"
FT /ligand_id="ChEBI:CHEBI:30413"
FT BINDING 130
FT /ligand="heme c"
FT /ligand_id="ChEBI:CHEBI:61717"
FT /ligand_part="Fe"
FT /ligand_part_id="ChEBI:CHEBI:18248"
FT /note="axial binding residue"
FT HELIX 75..85
FT /evidence="ECO:0007829|PDB:2CE0"
FT TURN 86..89
FT /evidence="ECO:0007829|PDB:2CE0"
FT HELIX 91..93
FT /evidence="ECO:0007829|PDB:2CE0"
FT STRAND 96..98
FT /evidence="ECO:0007829|PDB:2CE0"
FT HELIX 105..110
FT /evidence="ECO:0007829|PDB:2CE0"
FT HELIX 116..125
FT /evidence="ECO:0007829|PDB:2CE0"
FT STRAND 130..132
FT /evidence="ECO:0007829|PDB:2CE1"
FT HELIX 140..142
FT /evidence="ECO:0007829|PDB:2CE0"
FT HELIX 151..167
FT /evidence="ECO:0007829|PDB:2CE0"
SQ SEQUENCE 175 AA; 19210 MW; DE9B257F6A286E27 CRC64;
MRLVLSGASS FTSNLFCSSQ QVNGRGKELK NPISLNHNKD LDFLLKKLAP PLTAVLLAVS
PICFPPESLG QTLDIQRGAT LFNRACIGCH DTGGNIIQPG ATLFTKDLER NGVDTEEEIY
RVTYFGKGRM PGFGEKCTPR GQCTFGPRLQ DEEIKLLAEF VKFQADQGWP TVSTD
