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A4GGA2

- PSBD_PHAVU

UniProt

A4GGA2 - PSBD_PHAVU

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Protein

Photosystem II D2 protein

Gene

psbD

Organism
Phaseolus vulgaris (Kidney bean) (French bean)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

Functioni

One of the two reaction center proteins of photosystem II (PSII), 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

The psbA/B heterodimer shares a non-heme iron and each subunit also binds two chlorophylls and pheophytin.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi118 – 1181Magnesium (chlorophyll-a D2, axial ligand; peripheral)UniRule annotation
Metal bindingi215 – 2151Iron; shared with heterodimeric partnerUniRule annotation
Binding sitei215 – 2151Plastoquinone QAUniRule annotation
Binding sitei262 – 2621Plastoquinone QA; via amide nitrogenUniRule annotation
Metal bindingi269 – 2691Iron; shared with heterodimeric partnerUniRule 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

Iron, 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
Encoded oniPlastid; Chloroplast
OrganismiPhaseolus vulgaris (Kidney bean) (French bean)
Taxonomic identifieri3885 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsfabidsFabalesFabaceaePapilionoideaePhaseoleaePhaseolus

Subcellular locationi

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

GO - Cellular componenti

  1. chloroplast thylakoid membrane Source: UniProtKB-HAMAP
  2. integral component of membrane Source: UniProtKB-KW
  3. photosystem II Source: UniProtKB-KW
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_0000359685Add
BLAST

Amino acid modifications

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

Keywords - PTMi

Acetylation, Phosphoprotein

Interactioni

Subunit structurei

The psbA/B heterodimer binds the P680 chlorophylls and subsequent electron acceptors. PSII consists of a core antenna complex that captures photons, and an electron transfer chain that converts photonic excitation into a charge separation. PSII forms dimeric complexes By similarity.By similarity

Structurei

3D structure databases

ProteinModelPortaliA4GGA2.
SMRiA4GGA2. Positions 1-351.
ModBaseiSearch...
MobiDBiSearch...

Transmembrane

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei36 – 5621HelicalUniRule annotationAdd
BLAST
Transmembranei109 – 12921HelicalUniRule annotationAdd
BLAST
Transmembranei142 – 16423HelicalUniRule annotationAdd
BLAST
Transmembranei192 – 21827HelicalUniRule annotationAdd
BLAST
Transmembranei266 – 28621HelicalUniRule annotationAdd
BLAST

Family & Domainsi

Sequence similaritiesi

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

Keywords - Domaini

Transmembrane, Transmembrane helix

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.

A4GGA2-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTIALGKFTK DEKDLFDIMD DWLRRDRFVF VGWSGLLLFP CAYFALGGWF
60 70 80 90 100
TGTTFVTSWY THGLASSYLE GCNFLTAAVS TPANSLSHSL LLLWGPEAQG
110 120 130 140 150
DFTRWCQLGG LWTFVALHGA FGLIGFMLRQ FELARSVQLR PYNAIAFSGP
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 WMSALGVVGL ALNLRAYDFV
310 320 330 340 350
SQEIRAAEDP EFETFYTKNI LLNEGIRAWM AAQDQPHENL IFPEEVLPRG

NAL
Length:353
Mass (Da):39,580
Last modified:April 17, 2007 - v1
Checksum:i86DEFBD8E6445718
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
DQ886273 Genomic DNA. Translation: ABH88083.1.
EU196765 Genomic DNA. Translation: ABW22785.1.
RefSeqiYP_001122803.1. NC_009259.1.

Genome annotation databases

GeneIDi4961781.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
DQ886273 Genomic DNA. Translation: ABH88083.1 .
EU196765 Genomic DNA. Translation: ABW22785.1 .
RefSeqi YP_001122803.1. NC_009259.1.

3D structure databases

ProteinModelPortali A4GGA2.
SMRi A4GGA2. Positions 1-351.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 4961781.

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. "Rapid evolutionary change of common bean (Phaseolus vulgaris L) plastome, and the genomic diversification of legume chloroplasts."
    Guo X., Castillo-Ramirez S., Gonzalez V., Bustos P., Fernandez-Vazquez J.L., Santamaria R.I., Arellano J., Cevallos M.A., Davila G.
    BMC Genomics 8:228-228(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Negro Jamapa.
  2. "Complete nucleotide sequence of the plastid genome of the common bean, Phaseolus vulgaris."
    Moore M.J., Triplett E.W., Broughton W.J., Soltis P.S., Soltis D.E.
    Submitted (OCT-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiPSBD_PHAVU
AccessioniPrimary (citable) accession number: A4GGA2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 20, 2009
Last sequence update: April 17, 2007
Last modified: October 29, 2014
This is version 46 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

The peripheral chlorophyll-a D2 molecule has been identified as the spectroscopic species ChlzD2.UniRule annotation

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3