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Protein

Photosystem II D2 protein

Gene

psbD

Organism
Thalassiosira pseudonana (Marine diatom) (Cyclotella nana)
Status
Reviewed-Annotation score: -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

Miscellaneous

2 of the reaction center chlorophylls (ChlD1 and ChlD2) are entirely coordinated by water.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)DescriptionActionsGraphical viewLength
Metal bindingi116Magnesium (chlorophyll-a ChlzD2, axial ligand; peripheral); via tele nitrogenUniRule annotation1
Binding sitei128Pheophytin D2UniRule annotation1
Binding sitei141Pheophytin D2UniRule annotation1
Metal bindingi196Magnesium (chlorophyll-a PD2 axial ligand); via tele nitrogenUniRule annotation1
Metal bindingi213Iron; shared with heterodimeric partner; via tele nitrogenUniRule annotation1
Binding sitei213Plastoquinone Q(A)UniRule annotation1
Binding sitei260Plastoquinone Q(A); via amide nitrogenUniRule annotation1
Metal bindingi267Iron; shared with heterodimeric partner; via tele nitrogenUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
Biological processElectron transport, Photosynthesis, Transport
LigandChlorophyll, 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
Encoded oniPlastid; Chloroplast
OrganismiThalassiosira pseudonana (Marine diatom) (Cyclotella nana)
Taxonomic identifieri35128 [NCBI]
Taxonomic lineageiEukaryotaStramenopilesBacillariophytaCoscinodiscophyceaeThalassiosirophycidaeThalassiosiralesThalassiosiraceaeThalassiosira
Proteomesi
  • UP000001449 Componenti: Chloroplast

Subcellular locationi

  • chloroplast thylakoid membrane UniRule annotation; Multi-pass membrane protein UniRule annotation

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei39 – 59HelicalUniRule annotationAdd BLAST21
Transmembranei123 – 139HelicalUniRule annotationAdd BLAST17
Transmembranei151 – 164HelicalUniRule annotationAdd BLAST14
Transmembranei206 – 226HelicalUniRule annotationAdd BLAST21
Transmembranei277 – 293HelicalUniRule annotationAdd BLAST17

GO - Cellular componenti

Keywords - Cellular componenti

Chloroplast, Membrane, Photosystem II, Plastid, Thylakoid

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003597091 – 351Photosystem II D2 proteinAdd BLAST351

Proteomic databases

PRIDEiA0T0T0

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

ProteinModelPortaliA0T0T0
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

InParanoidiA0T0T0

Family and domain databases

CDDicd09288 Photosystem-II_D2, 1 hit
Gene3Di1.20.85.10, 1 hit
HAMAPiMF_01383 PSII_PsbD_D2, 1 hit
InterProiView protein in InterPro
IPR036854 Photo_II_D1/D2_sf
IPR000484 Photo_RC_L/M
IPR005868 PSII_PsbD/D2
PANTHERiPTHR33149 PTHR33149, 1 hit
PfamiView protein in Pfam
PF00124 Photo_RC, 1 hit
PRINTSiPR00256 REACTNCENTRE
SUPFAMiSSF81483 SSF81483, 1 hit
TIGRFAMsiTIGR01152 psbD, 1 hit
PROSITEiView protein in PROSITE
PS00244 REACTION_CENTER, 1 hit

Sequencei

Sequence statusi: Complete.

A0T0T0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTIAIGQNQE RGLFDLVDDW LKRDRFVFVG WSGILLFPTA YLAAGGWFTG
60 70 80 90 100
TTFVTSWYTH GLASSYLEGC NFLTAAVSTP ANSMGHSLLL LWGPEAQGDF
110 120 130 140 150
TRWCQIGGLW AFIALHGAFG LIGFCLRQFE IARLVGIRPY NAIAFSGPIA
160 170 180 190 200
VFVSVFLLYP LGQASWFFAP SFGVAAIFRF LLFLQGFHNW TLNPFHMMGV
210 220 230 240 250
AGILGGALLC AIHGATVENT LFEDGDAANT FRAFTPTQSE ETYSMVTANR
260 270 280 290 300
FWSQIFGVAF SNKRWLHFFM LFVPVAGLWT SSIGIVGLAL NLRAYDFVSQ
310 320 330 340 350
ELRAAEDPEF ETFYTKNILL NEGIRSWMAA QDQPHENFVF PEEVLPRGNA

L
Length:351
Mass (Da):39,064
Last modified:January 9, 2007 - v1
Checksum:i3A0912BE20853FB4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
EF067921 Genomic DNA Translation: ABK20765.1
RefSeqiYP_874542.1, NC_008589.1

Genome annotation databases

GeneIDi4524785

Similar proteinsi

Entry informationi

Entry nameiPSBD_THAPS
AccessioniPrimary (citable) accession number: A0T0T0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 20, 2009
Last sequence update: January 9, 2007
Last modified: February 28, 2018
This is version 65 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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