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A0T0T0

- PSBD_THAPS

UniProt

A0T0T0 - PSBD_THAPS

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Protein

Photosystem II D2 protein

Gene

psbD

Organism
Thalassiosira pseudonana (Marine diatom) (Cyclotella nana)
Status
Reviewed - Annotation score: 3 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 bindingi116 – 1161Magnesium (chlorophyll-a ChlzD2, axial ligand; peripheral); via tele nitrogenUniRule annotation
Binding sitei128 – 1281Pheophytin D2UniRule annotation
Binding sitei141 – 1411Pheophytin D2UniRule annotation
Metal bindingi196 – 1961Magnesium (chlorophyll-a PD2 axial ligand); via tele nitrogenUniRule annotation
Metal bindingi213 – 2131Iron; shared with heterodimeric partner; via tele nitrogenUniRule annotation
Binding sitei213 – 2131Plastoquinone Q(A)UniRule annotation
Binding sitei260 – 2601Plastoquinone Q(A); via amide nitrogenUniRule annotation
Metal bindingi267 – 2671Iron; 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
Encoded oniPlastid; Chloroplast
OrganismiThalassiosira pseudonana (Marine diatom) (Cyclotella nana)
Taxonomic identifieri35128 [NCBI]
Taxonomic lineageiEukaryotaStramenopilesBacillariophytaCoscinodiscophyceaeThalassiosirophycidaeThalassiosiralesThalassiosiraceaeThalassiosira
ProteomesiUP000001449: Chloroplast

Subcellular locationi

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

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei39 – 5921HelicalUniRule annotationAdd
BLAST
Transmembranei123 – 13917HelicalUniRule annotationAdd
BLAST
Transmembranei151 – 16414HelicalUniRule annotationAdd
BLAST
Transmembranei206 – 22621HelicalUniRule annotationAdd
BLAST
Transmembranei277 – 29317HelicalUniRule 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
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Membrane, Photosystem II, Plastid, Thylakoid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 351351Photosystem II D2 proteinPRO_0000359709Add
BLAST

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.
SMRiA0T0T0. Positions 1-349.
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

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.

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.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
EF067921 Genomic DNA. Translation: ABK20765.1 .
RefSeqi YP_874542.1. NC_008589.1.

3D structure databases

ProteinModelPortali A0T0T0.
SMRi A0T0T0. Positions 1-349.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 4524785.

Phylogenomic databases

InParanoidi A0T0T0.

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. "Chloroplast genomes of the diatoms Phaeodactylum tricornutum and Thalassiosira pseudonana: comparison with other plastid genomes of the red lineage."
    Oudot-Le Secq M.-P., Grimwood J., Shapiro H., Armbrust E.V., Bowler C., Green B.R.
    Mol. Genet. Genomics 277:427-439(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CCMP1335.

Entry informationi

Entry nameiPSBD_THAPS
AccessioniPrimary (citable) accession number: A0T0T0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 20, 2009
Last sequence update: January 9, 2007
Last modified: November 26, 2014
This is version 53 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Miscellaneous

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

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3