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Q9ZR03 (UCRIA_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 117. 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·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Cytochrome b6-f complex iron-sulfur subunit, chloroplastic

EC=1.10.9.1
Alternative name(s):
Plastohydroquinone:plastocyanin oxidoreductase iron-sulfur protein
Proton gradient regulation protein 1
Rieske iron-sulfur protein
Short name=ISP
Short name=RISP
Gene names
Name:petC
Synonyms:PGR1
Ordered Locus Names:At4g03280
ORF Names:F4C21.21
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length229 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Essential protein for photoautotrophism. Confers resistance to photo-oxidative damages by contributing to the thermal dissipation of light energy and to lumenal acidification (increase of pH gradient). Component of the cytochrome b6-f complex, which mediates electron transfer between photosystem II (PSII) and photosystem I (PSI), cyclic electron flow around PSI, and state transitions By similarity. Ref.6 Ref.7 Ref.9

Catalytic activity

Plastoquinol + 2 oxidized plastocyanin + 2 H+(Side 1) = plastoquinone + 2 reduced plastocyanin + 2 H+(Side 2). HAMAP-Rule MF_01335

Cofactor

Binds 1 2Fe-2S cluster per subunit By similarity. HAMAP-Rule MF_01335

Subunit structure

The 4 large subunits of the cytochrome b6-f complex are cytochrome b6, subunit IV (17 kDa polypeptide, petD), cytochrome f and the Rieske protein, while the 4 small subunits are petG, petL, petM and petN. The complex functions as a dimer By similarity. Interacts with PGRL1A. Ref.11

Subcellular location

Plastidchloroplast thylakoid membrane; Single-pass membrane protein By similarity. Note: The transmembrane helix obliquely spans the membrane in one monomer, and its extrinsic C-terminal domain is part of the other monomer By similarity. Ref.8

Tissue specificity

Confined to photosynthetic tissues, with highest levels in flowers. In leaves, mostly localized in mesophyll cells. In stems, confined to the peripheral ring of chlorenchyma and adjoining groups of cells associated with the vascular bundles. In siliques, present in green wall of the fruit and in peduncle but not in the translucide white septum of the seeds. Ref.1

Induction

Light-dependent expression. Inhibited by acidification of thylakoids (below pH 5), sucrose and norflurazon (caroteonid synthesis inhibitor leading to photobleaching). Ref.1 Ref.7

Miscellaneous

This protein is 1 of 2 subunits of the cytochrome b6-f complex that are encoded in the nucleus.

The Rieske iron-sulfur protein is a high potential 2Fe-2S protein.

Sequence similarities

Contains 1 Rieske domain.

Ontologies

Keywords
   Biological processElectron transport
Transport
   Cellular componentChloroplast
Membrane
Plastid
Thylakoid
   Coding sequence diversityAlternative splicing
   DomainTransit peptide
Transmembrane
Transmembrane helix
   Ligand2Fe-2S
Iron
Iron-sulfur
Metal-binding
   Molecular functionOxidoreductase
   PTMDisulfide bond
Phosphoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processdefense response to bacterium

Inferred from expression pattern PubMed 17028151. Source: TAIR

nonphotochemical quenching

Inferred from mutant phenotype Ref.6. Source: TAIR

photosynthetic electron transport chain

Traceable author statement Ref.1. Source: TAIR

response to karrikin

Inferred from expression pattern PubMed 20351290. Source: TAIR

   Cellular_componentchloroplast

Inferred from direct assay PubMed 15028209PubMed 18431481. Source: TAIR

chloroplast envelope

Inferred from direct assay Ref.8. Source: TAIR

chloroplast thylakoid

Inferred from direct assay PubMed 20061580. Source: TAIR

chloroplast thylakoid membrane

Inferred from direct assay PubMed 14729914PubMed 15322131. Source: TAIR

cytochrome b6f complex

Traceable author statement Ref.1. Source: TAIR

integral component of membrane

Inferred from electronic annotation. Source: UniProtKB-KW

membrane

Inferred from direct assay PubMed 17432890. Source: TAIR

plasma membrane

Inferred from direct assay PubMed 15060130. Source: TAIR

thylakoid

Inferred from direct assay PubMed 14729914PubMed 18633119. Source: TAIR

   Molecular_function2 iron, 2 sulfur cluster binding

Inferred from electronic annotation. Source: UniProtKB-KW

electron transporter, transferring electrons from cytochrome b6/f complex of photosystem II activity

Traceable author statement Ref.1. Source: TAIR

electron transporter, transferring electrons within cytochrome b6/f complex of photosystem II activity

Inferred from electronic annotation. Source: InterPro

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

plastoquinol--plastocyanin reductase activity

Inferred from electronic annotation. Source: UniProtKB-EC

ubiquinol-cytochrome-c reductase activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

FKBP16-2Q9SCY33EBI-2436968,EBI-2436954

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9ZR03-1)

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: Q9ZR03-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-19: Missing.
Note: May be due to an intron retention. No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Transit peptide1 – 5050Chloroplast Potential
Chain51 – 229179Cytochrome b6-f complex iron-sulfur subunit, chloroplastic HAMAP-Rule MF_01335
PRO_0000030684

Regions

Transmembrane68 – 9023Helical; Potential
Domain115 – 21197Rieske
Compositional bias68 – 736Poly-Leu HAMAP-Rule MF_01335
Compositional bias95 – 1028Poly-Gly HAMAP-Rule MF_01335

Sites

Metal binding1571Iron-sulfur (2Fe-2S) By similarity
Metal binding1591Iron-sulfur (2Fe-2S); via pros nitrogen By similarity
Metal binding1751Iron-sulfur (2Fe-2S) By similarity
Metal binding1781Iron-sulfur (2Fe-2S); via pros nitrogen By similarity

Amino acid modifications

Modified residue1961Phosphoserine Ref.10
Disulfide bond162 ↔ 177 By similarity

Natural variations

Alternative sequence1 – 1919Missing in isoform 2.
VSP_015096

Experimental info

Mutagenesis1941P → L in pgr1; reduces electron transfer from cyt b6/f to photosystem I at high light intensity, and shifts pH-dependent inactivation of electron transport to more alkaline pH. Ref.6 Ref.7
Sequence conflict481S → A in CAC03598. Ref.2

Sequences

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

Last modified May 1, 1999. Version 1.
Checksum: D79FAE03D85EA2F5

FASTA22924,366
        10         20         30         40         50         60 
MASSSLSPAT QLGSSRSALM AMSSGLFVKP TKMNHQMVRK EKIGLRISCQ ASSIPADRVP 

        70         80         90        100        110        120 
DMEKRKTLNL LLLGALSLPT GYMLVPYATF FVPPGTGGGG GGTPAKDALG NDVVAAEWLK 

       130        140        150        160        170        180 
THGPGDRTLT QGLKGDPTYL VVENDKTLAT YGINAVCTHL GCVVPWNKAE NKFLCPCHGS 

       190        200        210        220 
QYNAQGRVVR GPAPLSLALA HADIDEAGKV LFVPWVETDF RTGDAPWWS 

« Hide

Isoform 2 [UniParc].

Checksum: D4A249FC478EC230
Show »

FASTA21022,533

References

« Hide 'large scale' references
[1]"Tissue-specific, light-regulated and plastid-regulated expression of the single-copy nuclear gene encoding the chloroplast Rieske FeS protein of Arabidopsis thaliana."
Knight J.S., Duckett C.M., Sullivan J.A., Walker A.R., Gray J.C.
Plant Cell Physiol. 43:522-531(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] (ISOFORM 1), TISSUE SPECIFICITY, INDUCTION.
Strain: cv. Landsberg erecta.
[2]"Sequences and map position of 31 Arabidopsis thaliana cDNAs encoding organellar polypeptides."
Legen J., Misera S., Herrmann R.G., Altschmied L.
Submitted (AUG-1999) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
Strain: cv. Columbia.
[3]"Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana."
Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B. expand/collapse author list , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R.
Nature 402:769-777(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[4]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[5]"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] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
Strain: cv. Columbia.
[6]"Cytochrome b6/f mutation specifically affects thermal dissipation of absorbed light energy in Arabidopsis."
Munekage Y., Takeda S., Endo T., Jahns P., Hashimoto T., Shikanai T.
Plant J. 28:351-359(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, MUTAGENESIS OF PRO-194.
[7]"Single point mutation in the Rieske iron-sulfur subunit of cytochrome b6/f leads to an altered pH dependence of plastoquinol oxidation in Arabidopsis."
Jahns P., Graf M., Munekage Y., Shikanai T.
FEBS Lett. 519:99-102(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INDUCTION, MUTAGENESIS OF PRO-194.
[8]"Proteomics of the chloroplast envelope membranes from Arabidopsis thaliana."
Ferro M., Salvi D., Brugiere S., Miras S., Kowalski S., Louwagie M., Garin J., Joyard J., Rolland N.
Mol. Cell. Proteomics 2:325-345(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION, IDENTIFICATION BY MASS SPECTROMETRY.
Strain: cv. Wassilewskija.
[9]"Knock-out of the genes coding for the Rieske protein and the ATP-synthase delta-subunit of Arabidopsis. Effects on photosynthesis, thylakoid protein composition, and nuclear chloroplast gene expression."
Maiwald D., Dietzmann A., Jahns P., Pesaresi P., Joliot P., Joliot A., Levin J.Z., Salamini F., Leister D.
Plant Physiol. 133:191-202(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.
[10]"Identification of phosphoproteins in Arabidopsis thaliana leaves using polyethylene glycol fractionation, immobilized metal-ion affinity chromatography, two-dimensional gel electrophoresis and mass spectrometry."
Aryal U.K., Krochko J.E., Ross A.R.
J. Proteome Res. 11:425-437(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-196, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[11]"PGRL1 is the elusive ferredoxin-plastoquinone reductase in photosynthetic cyclic electron flow."
Hertle A.P., Blunder T., Wunder T., Pesaresi P., Pribil M., Armbruster U., Leister D.
Mol. Cell 49:511-523(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH PGRL1A.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ292972 Genomic DNA. Translation: CAC03598.1.
AJ243702 mRNA. Translation: CAB52433.1.
AC005275 Genomic DNA. Translation: AAD14456.1.
AL161496 Genomic DNA. Translation: CAB77813.1.
CP002687 Genomic DNA. Translation: AEE82301.1.
CP002687 Genomic DNA. Translation: AEE82302.1.
AF370566 mRNA. Translation: AAK49572.1.
AF410296 mRNA. Translation: AAK95282.1.
AY093726 mRNA. Translation: AAM10350.1.
PIRF85041.
PA0041.
RefSeqNP_192237.1. NM_116566.4.
NP_849295.1. NM_178964.2.
UniGeneAt.486.
At.67366.

3D structure databases

ProteinModelPortalQ9ZR03.
SMRQ9ZR03. Positions 59-229.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid13287. 3 interactions.
IntActQ9ZR03. 3 interactions.

Protein family/group databases

TCDB3.D.3.5.2. the proton-translocating quinol:cytochrome c reductase (qcr) superfamily.

Proteomic databases

PaxDbQ9ZR03.
PRIDEQ9ZR03.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT4G03280.1; AT4G03280.1; AT4G03280. [Q9ZR03-1]
GeneID827996.
KEGGath:AT4G03280.

Organism-specific databases

GeneFarm5037.
TAIRAT4G03280.

Phylogenomic databases

eggNOGCOG0723.
HOGENOMHOG000255192.
InParanoidQ9ZR03.
KOK02636.
OMAGDPTYIV.
PhylomeDBQ9ZR03.
ProtClustDBCLSN2685934.

Enzyme and pathway databases

BioCycARA:AT4G03280-MONOMER.
ARA:GQT-2516-MONOMER.

Gene expression databases

GenevestigatorQ9ZR03.

Family and domain databases

Gene3D2.102.10.10. 1 hit.
HAMAPMF_01335. Cytb6_f_Rieske.
InterProIPR014909. Cyt_b6-f_cplx_Fe-S_su.
IPR023960. Cyt_b6_f_Rieske.
IPR017941. Rieske_2Fe-2S.
IPR014349. Rieske_Fe-S_prot.
IPR005805. Rieske_Fe-S_prot_C.
[Graphical view]
PANTHERPTHR10134. PTHR10134. 1 hit.
PfamPF08802. CytB6-F_Fe-S. 1 hit.
PF00355. Rieske. 1 hit.
[Graphical view]
PRINTSPR00162. RIESKE.
SUPFAMSSF50022. SSF50022. 1 hit.
PROSITEPS51296. RIESKE. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameUCRIA_ARATH
AccessionPrimary (citable) accession number: Q9ZR03
Secondary accession number(s): Q94EI4, Q9FYB6
Entry history
Integrated into UniProtKB/Swiss-Prot: July 5, 2005
Last sequence update: May 1, 1999
Last modified: April 16, 2014
This is version 117 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names