Skip Header

Contribute Send feedback
Read comments (?) or add your own

A0A330 (PSBD_COFAR) Reviewed, UniProtKB/Swiss-Prot

Last modified April 3, 2013. Version 43. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Photosystem II D2 protein
Short name=PSII D2 protein
EC=1.10.3.9
Alternative name(s):
Photosystem Q(A) protein
Gene names
Name:psbD
Encoded onPlastid; Chloroplast
OrganismCoffea arabica (Arabian coffee)
Taxonomic identifier13443 [NCBI]
Taxonomic lineageEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › asterids › lamiids › Gentianales › Rubiaceae › Ixoroideae › Coffeeae › Coffea

Protein attributes

Sequence length353 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

One of the two reaction center proteins of photosystem II (PSII), D2 is needed for assembly of a stable PSII complex By similarity. HAMAP-Rule MF_01383

Catalytic activity

2 H2O + 2 plastoquinone + 4 light = O2 + 2 plastoquinol. HAMAP-Rule MF_01383

Cofactor

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

Subunit structure

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.

Subcellular location

Plastid › chloroplast thylakoid membrane; Multi-pass membrane protein By similarity HAMAP-Rule MF_01383.

Miscellaneous

The peripheral chlorophyll-a D2 molecule has been identified as the spectroscopic species ChlzD2 By similarity. HAMAP-Rule MF_01383

Sequence similarities

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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 353353Photosystem II D2 protein HAMAP-Rule MF_01383
PRO_0000359637

Regions

Transmembrane36 – 5621Helical; Potential
Transmembrane109 – 12921Helical; Potential
Transmembrane142 – 16423Helical; Potential
Transmembrane192 – 21827Helical; Potential
Transmembrane266 – 28621Helical; Potential

Sites

Metal binding1181Magnesium (chlorophyll-a D2, axial ligand; peripheral) By similarity
Metal binding2151Iron; shared with heterodimeric partner By similarity
Metal binding2691Iron; shared with heterodimeric partner By similarity
Binding site2151Plastoquinone QA By similarity
Binding site2621Plastoquinone QA; via amide nitrogen By similarity

Amino acid modifications

Modified residue21N-acetylthreonine By similarity
Modified residue21Phosphothreonine By similarity

Sequences

Sequence LengthMass (Da)Tools
A0A330 [UniParc].

Last modified November 14, 2006. Version 1.
Checksum: 2612541128E4C643

FASTA35339,564
        10         20         30         40         50         60 
MTIALGKFTK DENDLFDIMD DWLRRDRFVF VGWSGLLLFP CAYFALGGWF TGTTFVTSWY 

        70         80         90        100        110        120 
THGLASSYLE GCNFLTAAVS TPANSLAHSL LLLWGPEAQG DFTRWCQLGG LWTFVALHGA 

       130        140        150        160        170        180 
FGLIGFMLRQ FELARSVQLR PYNAIAFSAP IAVFVSVFLI YPLGQSGWFF APSFGVAAIF 

       190        200        210        220        230        240 
RFILFFQGFH NWTLNPFHMM GVAGVLGAAL LCAIHGATVE NTLFEDGDGA NTFRAFNPTQ 

       250        260        270        280        290        300 
AEETYSMVTA NRFWSQIFGV AFSNKRWLHF FMLFVPVTGL WMSALGVVGL ALNLRAYDFV 

       310        320        330        340        350 
SQEIRAAEDP EFETFYTKNI LLNEGIRAWM AAQDQPHENL IFPEEVLPRG NAL

« Hide

References

[1]"The complete nucleotide sequence of the coffee (Coffea arabica L.) chloroplast genome: organization and implications for biotechnology and phylogenetic relationships amongst angiosperms."
Samson N., Bausher M.G., Lee S.-B., Jansen R.K., Daniell H.
Plant Biotechnol. J. 5:339-353(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		EF044213 Genomic DNA. Translation: ABJ89674.1.
RefSeqYP_817477.1. NC_008535.1.

3D structure databases

ProteinModelPortalA0A330.
SMRA0A330. Positions 1-351.
ModBaseSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID4421868.

Phylogenomic databases

ProtClustDBCHL00004.

Family and domain databases

Gene3D1.20.85.10. 2 hits.
HAMAPMF_01383. PSII_PsbD_D2.
InterProIPR000484. Photo_RC_L/M.
IPR005868. PSII_PsbD/D2.
[Graphical view]
PfamPF00124. Photo_RC. 1 hit.
[Graphical view]
PRINTSPR00256. REACTNCENTRE.
SUPFAMSSF81483. Photo_RC_L/M. 1 hit.
TIGRFAMsTIGR01152. psbD. 1 hit.
PROSITEPS00244. REACTION_CENTER. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry namePSBD_COFAR
AccessionPrimary (citable) accession number: A0A330
Entry history
Integrated into UniProtKB/Swiss-Prot: January 20, 2009
Last sequence update: November 14, 2006
Last modified: April 3, 2013
This is version 43 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

to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents