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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE GLUTAREDOXIN FROM METHANOSARCINA MAZEI GO1
 
Authors :  R. Zhang, R. Wu, L. Freeman, A. Joachimiak, Midwest Center For Struc Genomics (Mcsg)
Date :  16 Jul 10  (Deposition) - 28 Jul 10  (Release) - 28 Jul 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A (2x),B (2x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Structural Genomics, Psi2, Mcsg, Protein Structure Initiative, Midwest Center For Structural Genomics, Rossmann Fold, Glutaredoxin, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zhang, R. Wu, L. Freeman, A. Joachimiak
The Crystal Structure Of The Glutaredoxin From Methanosarcina Mazei Go1
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - GLUTAREDOXIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: MM_3271
    Organism Scientific: METHANOSARCINA MAZEI
    Organism Taxid: 2209
    Strain: GO1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A (2x)B (2x)
Biological Unit 2 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric Unit (2, 5)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2SO44Ligand/IonSULFATE ION
Biological Unit 1 (2, 10)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2SO48Ligand/IonSULFATE ION
Biological Unit 2 (2, 10)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2SO48Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:93 , GLU A:94 , LYS A:95 , GLU A:96 , HOH A:180BINDING SITE FOR RESIDUE GOL A 104
2AC2SOFTWAREGLY A:22 , LYS A:23 , ASN A:84 , HOH A:121 , HOH A:198 , HOH A:261 , TRP B:34 , LYS B:37 , PHE B:92 , HOH B:119BINDING SITE FOR RESIDUE SO4 A 105
3AC3SOFTWAREGLY A:59 , LYS A:60 , HOH A:187 , HOH A:219 , HIS B:15BINDING SITE FOR RESIDUE SO4 A 106
4AC4SOFTWARELYS A:10 , HIS A:15 , TYR A:51 , HOH A:207 , HOH A:224 , HOH A:271BINDING SITE FOR RESIDUE SO4 A 107
5AC5SOFTWAREGLY A:46 , HOH A:132 , HOH A:172 , HOH A:203 , LYS B:95 , ARG B:98BINDING SITE FOR RESIDUE SO4 A 108

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:32 -A:35
2B:32 -B:35

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Phe A:78 -Pro A:79
2Phe B:78 -Pro B:79

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3NZN)

(-) Exons   (0, 0)

(no "Exon" information available for 3NZN)

(-) Sequences/Alignments

Asymmetric 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:103
 aligned with Q8PS17_METMA | Q8PS17 from UniProtKB/TrEMBL  Length:100

    Alignment length:103
                               1                                                                                                   
                               |     7        17        27        37        47        57        67        77        87        97   
         Q8PS17_METMA     - ---MNLFGQKDRGNHVSGVDRGKVIMYGLSTCVWCKKTKKLLTDLGVDFDYVYVDRLEGKEEEEAVEEVRRFNPSVSFPTTIINDEKAIVGFKEKEIRESLGF 100
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee.....eeeeee........eeeee...hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhh......eeee...eeee..hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3nzn A   1 SNAVNLFGQKDRGNHVSGVDRGKVIMYGLSTCVWCKKTKKLLTDLGVDFDYVYVDRLEGKEEEEAVEEVRRFNPSVSFPTTIINDEKAIVGFKEKEIRESLGF 103
                                    10        20        30        40        50        60        70        80        90       100   


Chain B from PDB  Type:PROTEIN  Length:103
 aligned with Q8PS17_METMA | Q8PS17 from UniProtKB/TrEMBL  Length:100

    Alignment length:103
                               1                                                                                                   
                               |     7        17        27        37        47        57        67        77        87        97   
         Q8PS17_METMA     - ---MNLFGQKDRGNHVSGVDRGKVIMYGLSTCVWCKKTKKLLTDLGVDFDYVYVDRLEGKEEEEAVEEVRRFNPSVSFPTTIINDEKAIVGFKEKEIRESLGF 100
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------Glutaredoxin-3nznB01 B:24-88                                     --------------- Pfam domains (1)
           Pfam domains (2) -----------------------Glutaredoxin-3nznB02 B:24-88                                     --------------- Pfam domains (2)
         Sec.struct. author ............eeee.......eeeee...hhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhh........eeee...eeee..hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                 3nzn B   1 SNAVNLFGQKDRGNHVSGVDRGKVIMYGLSTCVWCKKTKKLLTDLGVDFDYVYVDRLEGKEEEEAVEEVRRFNPSVSFPTTIINDEKAIVGFKEKEIRESLGF 103
                                    10        20        30        40        50        60        70        80        90       100
   Legend:   → Mismatch (orange background)
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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 3NZN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Thioredoxin (367)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q8PS17_METMA | Q8PS17)
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: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: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:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

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