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(-) Description

Title :  CRYSTAL STRUCTURE OF THE APO FORM OF GLUTAREDOXIN C5 FROM ARABIDOPSIS THALIANA
 
Authors :  T. Roret, J. Couturier, P. Tsan, J. P. Jacquot, N. Rouhier, C. Didierjea
Date :  11 Apr 11  (Deposition) - 01 Jun 11  (Release) - 14 Dec 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Thioredoxin Fold, Thiol-Disulfide Oxidoreductase, Glutaredoxin, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Couturier, E. Stroher, A. N. Albetel, T. Roret, M. Muthuramalingam L. Tarrago, T. Seidel, P. Tsan, J. P. Jacquot, M. K. Johnson, K. J. Dietz C. Didierjean, N. Rouhier
Arabidopsis Chloroplastic Glutaredoxin C5 As A Model To Explore Molecular Determinants For Iron-Sulfur Cluster Binding Into Glutaredoxins.
J. Biol. Chem. V. 286 27515 2011
PubMed-ID: 21632542  |  Reference-DOI: 10.1074/JBC.M111.228726

(-) Compounds

Molecule 1 - GLUTAREDOXIN-C5, CHLOROPLASTIC
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: GRXC5, AT4G28730, F16A16.160
    Organism Common: MOUSE-EAR CRESS,THALE-CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: ATGRXC5

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1GSH1Ligand/IonGLUTATHIONE
2SO43Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:13 , TRP A:28 , CYS A:29 , ARG A:67 , LEU A:68 , HIS A:72 , THR A:73 , VAL A:74 , PRO A:75 , HIS A:83 , GLY A:86 , CYS A:87 , THR A:88 , HOH A:135 , HOH A:138 , HOH A:175 , HOH A:178 , HOH A:218BINDING SITE FOR RESIDUE GSH A 114
2AC2SOFTWARELYS A:26 , TRP A:28 , ASP A:52 , HOH A:147BINDING SITE FOR RESIDUE SO4 A 115
3AC3SOFTWARESER A:6 , ARG A:7 , MET A:8 , GLY A:43BINDING SITE FOR RESIDUE SO4 A 116
4AC4SOFTWAREARG A:7 , LYS A:40 , ARG A:41 , GLN A:60 , LYS A:96 , HOH A:120BINDING SITE FOR RESIDUE SO4 A 117

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RHB)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Val A:74 -Pro A:75

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RHB)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GLUTAREDOXIN_2PS51354 Glutaredoxin domain profile.GRXC5_ARATH70-171  1A:9-105

(-) Exons   (0, 0)

(no "Exon" information available for 3RHB)

(-) 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:100
 aligned with GRXC5_ARATH | Q8GWS0 from UniProtKB/Swiss-Prot  Length:174

    Alignment length:100
                                    76        86        96       106       116       126       136       146       156       166
          GRXC5_ARATH    67 SRMEESIRKTVTENTVVIYSKTWCSYCTEVKTLFKRLGVQPLVVELDQLGPQGPQLQKVLERLTGQHTVPNVFVCGKHIGGCTDTVKLNRKGDLELMLAE 166
               SCOP domains d3rhba_ A: automated matches                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------Glutaredoxin-3rhbA01 A:21-84                                    --------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhh....eeee.hhhhhhhhhhhhhhhhhhh.....eeee..eeeehhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---GLUTAREDOXIN_2  PDB: A:9-105 UniProt: 70-171                                                      PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------- Transcript
                 3rhb A   6 SRMEESIRKTVTENTVVIYSKTWCSYCTEVKTLFKRLGVQPLVVELDQLGPQGPQLQKVLERLTGQHTVPNVFVCGKHIGGCTDTVKLNRKGDLELMLAE 105
                                    15        25        35        45        55        65        75        85        95       105
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RHB)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Thioredoxin (367)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GRXC5_ARATH | Q8GWS0)
molecular function
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    GO:0004362    glutathione-disulfide reductase activity    Catalysis of the reaction: 2 glutathione + NADP+ = glutathione disulfide + NADPH + H+.
    GO:0015035    protein disulfide oxidoreductase activity    Catalysis of the reaction: a protein with reduced sulfide groups = a protein with oxidized disulfide bonds.
biological process
    GO:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    GO:0016226    iron-sulfur cluster assembly    The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
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: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.

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        GRXC5_ARATH | Q8GWS0: 3rhc

(-) Related Entries Specified in the PDB File

3fz9 3rhc