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P0C435

- PSBD_ORYSA

UniProt

P0C435 - PSBD_ORYSA

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Protein

Photosystem II D2 protein

Gene

psbD

Organism
Oryza sativa (Rice)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi

Functioni

Photosystem II (PSII) is a light-driven water: plastoquinone oxidoreductase that uses light energy to abstract electrons from H2O, generating O2 and a proton gradient subsequently used for ATP formation. It consists of a core antenna complex that captures photons, and an electron transfer chain that converts photonic excitation into a charge separation. The D1/D2 (PsbA/PsbA) reaction center heterodimer binds P680, the primary electron donor of PSII as well as several subsequent electron acceptors. D2 is needed for assembly of a stable PSII complex.UniRule annotation

Catalytic activityi

2 H2O + 2 plastoquinone + 4 light = O2 + 2 plastoquinol.UniRule annotation

Cofactori

Note: The D1/D2 heterodimer binds P680, chlorophylls that are the primary electron donor of PSII, and subsequent electron acceptors. It shares a non-heme iron and each subunit binds pheophytin, quinone, additional chlorophylls, carotenoids and lipids. There is also a Cl(-1) ion associated with D1 and D2, which is required for oxygen evolution. The PSII complex binds additional chlorophylls, carotenoids and specific lipids.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi118 – 1181Magnesium (chlorophyll-a ChlzD2, axial ligand; peripheral); via tele nitrogenUniRule annotation
Binding sitei130 – 1301Pheophytin D2UniRule annotation
Binding sitei143 – 1431Pheophytin D2UniRule annotation
Metal bindingi198 – 1981Magnesium (chlorophyll-a PD2 axial ligand); via tele nitrogenUniRule annotation
Metal bindingi215 – 2151Iron; shared with heterodimeric partner; via tele nitrogenUniRule annotation
Binding sitei215 – 2151Plastoquinone Q(A)UniRule annotation
Binding sitei262 – 2621Plastoquinone Q(A); via amide nitrogenUniRule annotation
Metal bindingi269 – 2691Iron; shared with heterodimeric partner; via tele nitrogenUniRule annotation

GO - Molecular functioni

  1. electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity Source: InterPro
  2. iron ion binding Source: UniProtKB-HAMAP
  3. oxidoreductase activity Source: UniProtKB-KW

GO - Biological processi

  1. photosynthetic electron transport in photosystem II Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Electron transport, Photosynthesis, Transport

Keywords - Ligandi

Chlorophyll, Chromophore, Iron, Magnesium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Photosystem II D2 proteinUniRule annotation (EC:1.10.3.9UniRule annotation)
Short name:
PSII D2 proteinUniRule annotation
Alternative name(s):
Photosystem Q(A) proteinUniRule annotation
Gene namesi
Name:psbDUniRule annotation
ORF Names:PA018
Encoded oniPlastid; Chloroplast
OrganismiOryza sativa (Rice)
Taxonomic identifieri4530 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza

Organism-specific databases

GrameneiP0C435.

Subcellular locationi

Plastidchloroplast thylakoid membrane UniRule annotation; Multi-pass membrane protein UniRule annotation

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei41 – 6121HelicalUniRule annotationAdd
BLAST
Transmembranei125 – 14117HelicalUniRule annotationAdd
BLAST
Transmembranei153 – 16614HelicalUniRule annotationAdd
BLAST
Transmembranei208 – 22821HelicalUniRule annotationAdd
BLAST
Transmembranei279 – 29517HelicalUniRule annotationAdd
BLAST

GO - Cellular componenti

  1. chloroplast thylakoid membrane Source: UniProtKB-HAMAP
  2. integral component of membrane Source: UniProtKB-KW
  3. photosystem II Source: UniProtKB-KW
  4. plastid Source: Gramene
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Membrane, Photosystem II, Plastid, Thylakoid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 353353Photosystem II D2 proteinPRO_0000090515Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylthreonineUniRule annotation
Modified residuei2 – 21PhosphothreonineUniRule annotation

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PRIDEiP0C435.

Expressioni

Gene expression databases

GenevestigatoriP0C435.

Interactioni

Subunit structurei

PSII is composed of 1 copy each of membrane proteins PsbA, PsbB, PsbC, PsbD, PsbE, PsbF, PsbH, PsbI, PsbJ, PsbK, PsbL, PsbM, PsbT, PsbX, PsbY, PsbZ, Ycf12, at least 3 peripheral proteins of the oxygen-evolving complex and a large number of cofactors. It forms dimeric complexes.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliP0C435.
SMRiP0C435. Positions 1-351.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the reaction center PufL/M/PsbA/D family.UniRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

HOGENOMiHOG000233052.

Family and domain databases

Gene3Di1.20.85.10. 2 hits.
HAMAPiMF_01383. PSII_PsbD_D2.
InterProiIPR000484. Photo_RC_L/M.
IPR005868. PSII_PsbD/D2.
[Graphical view]
PfamiPF00124. Photo_RC. 1 hit.
[Graphical view]
PRINTSiPR00256. REACTNCENTRE.
SUPFAMiSSF81483. SSF81483. 1 hit.
TIGRFAMsiTIGR01152. psbD. 1 hit.
PROSITEiPS00244. REACTION_CENTER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0C435-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTIALGRVTK EENDLFDIMD DWLRRDRFVF VGWSGLLLFP CAYFALGGWF
60 70 80 90 100
TGTTFVTSWY THGLASSYLE GCNFLTAAVS TPANSLAHSL LLLWGPEAQG
110 120 130 140 150
DFTRWCQLGG LWTFVALHGA FALIGFMLRQ FELARSVQLR PYNAISFSGP
160 170 180 190 200
IAVFVSVFLI YPLGQSGWFF APSFGVAAIF RFILFFQGFH NWTLNPFHMM
210 220 230 240 250
GVAGVLGAAL LCAIHGATVE NTLFEDGDGA NTFRAFNPTQ AEETYSMVTA
260 270 280 290 300
NRFWSQIFGV AFSNKRWLHF FMLFVPVTGL WMSAIGVVGL ALNLRAYDFV
310 320 330 340 350
SQEIRAAEDP EFETFYTKNI LLNEGIRAWM AAQDQPHENL IFPEEVLPRG

NAL
Length:353
Mass (Da):39,573
Last modified:June 12, 2007 - v1
Checksum:i241372989BAE045B
GO

Sequence cautioni

The sequence AAS46171.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortenedCurated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY522331 Genomic DNA. Translation: AAS46171.1. Different initiation.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY522331 Genomic DNA. Translation: AAS46171.1 . Different initiation.

3D structure databases

ProteinModelPortali P0C435.
SMRi P0C435. Positions 1-351.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PRIDEi P0C435.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Organism-specific databases

Gramenei P0C435.

Phylogenomic databases

HOGENOMi HOG000233052.

Gene expression databases

Genevestigatori P0C435.

Family and domain databases

Gene3Di 1.20.85.10. 2 hits.
HAMAPi MF_01383. PSII_PsbD_D2.
InterProi IPR000484. Photo_RC_L/M.
IPR005868. PSII_PsbD/D2.
[Graphical view ]
Pfami PF00124. Photo_RC. 1 hit.
[Graphical view ]
PRINTSi PR00256. REACTNCENTRE.
SUPFAMi SSF81483. SSF81483. 1 hit.
TIGRFAMsi TIGR01152. psbD. 1 hit.
PROSITEi PS00244. REACTION_CENTER. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. PA64s.

Entry informationi

Entry nameiPSBD_ORYSA
AccessioniPrimary (citable) accession number: P0C435
Secondary accession number(s): P12095, Q6QY23, Q6QY86
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 12, 2007
Last sequence update: June 12, 2007
Last modified: November 26, 2014
This is version 45 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

2 of the reaction center chlorophylls (ChlD1 and ChlD2) are entirely coordinated by water.UniRule annotation

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3