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(-) Description

Title :  STRUCTURE OF PSBP PROTEIN FROM SPINACIA OLERACEA AT 1.98 A RESOLUTION
 
Authors :  M. Lapkouski, R. Ristvejova, J. B. Arellano, J. L. Revuelta, I. Kuta Sm R. Ettrich
Date :  21 May 08  (Deposition) - 21 Jul 09  (Release) - 07 Nov 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.98
Chains :  Asym./Biol. Unit :  A
Keywords :  23 Kda Protein, Transit Peptide, Higher Plants, Photosynthesis, Photosystem Ii, Membrane, Thylakoid, Chloroplast, Oxygen-Evolving Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. J. Kopecky, J. Kohoutova, M. Lapkouski, K. Hofbauerova, Z. Sovova, O. Ettrichova, S. Gonzalez-Perez, A. Dulebo, D. Kaftan, I. Kuta Smatanova, J. L. Revuelta, J. B. Arellano, J. Carey, R. Ettrich
Raman Spectroscopy Adds Complementary Detail To The High- Resolution X-Ray Crystal Structure Of Photosynthetic Psbp From Spinacia Oleracea.
Plos One V. 7E46694 2012
PubMed-ID: 23071614  |  Reference-DOI: 10.1371/JOURNAL.PONE.0046694

(-) Compounds

Molecule 1 - OXYGEN-EVOLVING ENHANCER PROTEIN 2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: JR2592
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET12A
    Organism Common: SPINACH
    Organism Scientific: SPINACIA OLERACEA
    Organism Taxid: 3562
    Synonym: OEE2,23 KDA SUBUNIT OF OXYGEN EVOLVING SYSTEM OF PHOTOSYSTEM II, 23 KDA THYLAKOID MEMBRANE PROTEIN, PSBP

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1ZN1Ligand/IonZINC ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:79 , HIS A:144 , ASP A:165 , HOH A:2034BINDING SITE FOR RESIDUE ZN A1187

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VU4)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:140 -Gly A:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VU4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VU4)

(-) Exons   (0, 0)

(no "Exon" information available for 2VU4)

(-) 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:148
 aligned with PSBP_SPIOL | P12302 from UniProtKB/Swiss-Prot  Length:267

    Alignment length:171
                                   106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266 
           PSBP_SPIOL    97 TEFMPYNGDGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLSVLVQPTDKKSITDFGSPEDFLSQVDYLLGKQAYFGKTDSEGGFDSGVVASANVLESSTPVVDGKQYYSITVLTRTADGDEGGKHQVIAATVKDGKLYICKAQAGDKRWFKGAKKFVESATSSFSVA 267
               SCOP domains d2vu4a_ A: automated matches                                                                                                                                                SCOP domains
               CATH domains 2vu4A00 A:16-186 Protein Transport Mog1p; Chain A                                                                                                                           CATH domains
               Pfam domains PsbP-2vu4A01 A:16-186                                                                                                                                                       Pfam domains
         Sec.struct. author ..eeeee...eeeeee...ee........eeeeee.......eeeeeeee....hhhhhhhhhhhhhhhhhhhh------------------...eeeeeee..ee..ee.eeeeeee.-----...eeeeeeeeee..eeeeeeeeeehhhhhhhhhhhhhhhhhhhee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vu4 A  16 TEFMPYNGDGFKLLVPSKWNPSKEKEFPGQVLRYEDNFDATSNLSVLVQPTDKKSITDFGSPEDFLSQVDYLLG------------------VASANVLESSTPVVDGKQYYSITVLTR-----EGGKHQVIAATVKDGKLYICKAQAGDKRWFKGAKKFVESATSSFSVA 186
                                    25        35        45        55        65        75        85   |     -         -  |    115       125        |-    |  145       155       165       175       185 
                                                                                                    89                108                       134   140
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: PsbP] (3)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PSBP_SPIOL | P12302)
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
        PSBP_SPIOL | P12302: 3jcu 4rti

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