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(-) Description

Title :  CRYSTAL STRUCTURE OF PSBQ PROTEIN OF PHOTOSYSTEM II FROM HIGHER PLANTS
 
Authors :  J. A. Hermoso, M. Balsera, J. De Las Rivas, J. B. Arellano
Date :  30 Apr 04  (Deposition) - 26 May 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.49
Chains :  Asym./Biol. Unit :  A
Keywords :  Photosystem Ii, Oxygen-Enhancer Evolving Complex, Water Oxidizing Complex, Psbq, Oee3, Photosynthesis, Chloroplast, Transit Peptide, Thylakoid, Membrane (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Balsera, J. B. Arellano, J. L. Revuelta, J. De Las Rivas, J. A. Hermoso
The 1. 49 A Resolution Crystal Structure Of Psbq From Photosystem Ii Of Spinacia Oleracea Reveals A Ppii Structure In The N-Terminal Region.
J. Mol. Biol. V. 350 1051 2005
PubMed-ID: 15982665  |  Reference-DOI: 10.1016/J.JMB.2005.05.044

(-) Compounds

Molecule 1 - OXYGEN-EVOLVING ENHANCER PROTEIN 3
    Chains: A
    Organism Common: SPINACH
    Organism Scientific: SPINACIA OLERACEA
    Organism Taxid: 3562
    Synonym: CHLOROPLAST PRECURSOR, OEE3,16KDA SUBUNIT OF OXYGEN EVOLVING SYSTEM OF PHOTOSYSTEM II, OEC 16KDA SUBUNIT

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2ZN2Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:63 , ASP A:67 , GLU A:131 , HOH A:2263BINDING SITE FOR RESIDUE ZN A1150
2AC2SOFTWAREGLN A:105 , HIS A:120 , GLU A:129 , ACT A:1152BINDING SITE FOR RESIDUE ZN A1151
3AC3SOFTWARELYS A:102 , GLN A:105 , HIS A:120 , GLU A:129 , TYR A:133 , ZN A:1151 , HOH A:2264BINDING SITE FOR RESIDUE ACT A1152

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1VYK)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1VYK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1VYK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1VYK)

(-) Exons   (0, 0)

(no "Exon" information available for 1VYK)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:129
 aligned with PSBQ_SPIOL | P12301 from UniProtKB/Swiss-Prot  Length:232

    Alignment length:149
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223         
           PSBQ_SPIOL    84 EARPIVVGPPPPLSGGLPGTENSDQARDGTLPYTKDRFYLQPLPPTEAAQRAKVSASEILNVKQFIDRKAWPSLQNDLRLRASYLRYDLKTVISAKPKDEKKSLQELTSKLFSSIDNLDHAAKIKSPTEAEKYYGQTVSNINEVLAKLG 232
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains PsbQ-1vykA01                     A:1-149                                                                                                              Pfam domains
         Sec.struct. author ....ee.......--------------------.....ee...hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vyk A   1 EARPIVVGPPPPL--------------------TKDRFYLQPLPPTEAAQRAKVSASEILNVKQFIDRKAWPSLQNDLRLRASYLRYDLKTVISAKPKDEKKSLQELTSKLFSSIDNLDHAAKIKSPTEAEKYYGQTVSNINEVLAKLG 149
                                    10  |      -         -   |    40        50        60        70        80        90       100       110       120       130       140         
                                       13                   34
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1VYK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1VYK)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: PsbQ] (4)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PSBQ_SPIOL | P12301)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
biological process
    GO:0015979    photosynthesis    The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.
cellular component
    GO:0009507    chloroplast    A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
    GO:0009535    chloroplast thylakoid membrane    The pigmented membrane of a chloroplast thylakoid. An example of this component is found in Arabidopsis thaliana.
    GO:0019898    extrinsic component of membrane    The component of a membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0009523    photosystem II    A photosystem that contains a pheophytin-quinone reaction center with associated accessory pigments and electron carriers. In cyanobacteria and chloroplasts, in the presence of light, PSII functions as a water-plastoquinone oxidoreductase, transferring electrons from water to plastoquinone, whereas other photosynthetic bacteria carry out anoxygenic photosynthesis and oxidize other compounds to re-reduce the photoreaction center.
    GO:0009654    photosystem II oxygen evolving complex    A complex, composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins, that catalyzes the splitting of water to O2 and 4 H+. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ).
    GO:0009536    plastid    Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.
    GO:0009579    thylakoid    A membranous cellular structure that bears the photosynthetic pigments in plants, algae, and cyanobacteria. In cyanobacteria thylakoids are of various shapes and are attached to, or continuous with, the plasma membrane. In eukaryotes they are flattened, membrane-bounded disk-like structures located in the chloroplasts; in the chloroplasts of higher plants the thylakoids form dense stacks called grana. Isolated thylakoid preparations can carry out photosynthetic electron transport and the associated phosphorylation.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        PSBQ_SPIOL | P12301: 1nze 2mwq 3jcu

(-) Related Entries Specified in the PDB File

1nze CRYSTAL STRUCTURE OF PSBQ POLYPEPTIDE OF PHOTOSYSTEM II FROM HIGHER PLANTS