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(-) Description

Authors :  Y. -X. He, M. -X. Zhao, C. Zhou
Date :  23 Nov 07  (Deposition) - 09 Dec 08  (Release) - 25 Apr 12  (Revision)
Resolution :  2.05
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Alpha/Beta Fold, Manganese, Metal-Binding, Mitochondrion, Oxidoreductase, Transit Peptide (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  Y. Kang, Y. -X. He, M. -X. Zhao, W. -F. Li
Structures Of Native And Fe-Substituted Sod2 From Saccharomyces Cerevisiae
Acta Crystallogr. , Sect. F V. 67 1173 2011
PubMed-ID: 22102021  |  Reference-DOI: 10.1107/S1744309111029186

(-) Compounds

    EC Number1.15.1.1
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28A
    Expression System StrainROSETTA
    Expression System Taxid562
    Expression System Vector TypePLASMID
    Organism Taxid4932

 Structural Features

(-) Chains, Units

Asymmetric Unit A
Biological Unit 1 (4x)A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
1Glu A:23 -Pro A:24

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
1SOD_MNPS00088 Manganese and iron superoxide dismutases signature.SODM_YEAST194-201  1A:176-183
Biological Unit 1 (1, 4)
1SOD_MNPS00088 Manganese and iron superoxide dismutases signature.SODM_YEAST194-201  4A:176-183

(-) Exons   (0, 0)

(no "Exon" information available for 3BFR)

(-) 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:205
 aligned with SODM_YEAST | P00447 from UniProtKB/Swiss-Prot  Length:233

    Alignment length:205
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226     
               SCOP domains d3bfra1 A:9-98 Mn superoxide dismutase (MnSOD)                                            d3bfra2 A:99-213 Mn superoxide dismutase (MnSOD)                                                                    SCOP domains
               CATH domains ------------------3bfrA01 A:27-97 Fe,Mn superoxide dismutase (SOD) domain                -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....eeeeeeee........eeeeeeee.hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------SOD_MN  ------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208     

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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  (2, 2)

Asymmetric Unit

(-) CATH Domains  (1, 1)

Asymmetric Unit

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3BFR)

(-) Gene Ontology  (12, 12)

Asymmetric Unit(hide GO term definitions)
Chain A   (SODM_YEAST | P00447)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0004784    superoxide dismutase activity    Catalysis of the reaction: 2 superoxide + 2 H+ = O2 + hydrogen peroxide.
biological process
    GO:0001324    age-dependent response to oxidative stress involved in chronological cell aging    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) occurring in non-dividing cells as they age as a result of oxidative stress, where the change varies according to the age of the cell or organism.
    GO:0001320    age-dependent response to reactive oxygen species involved in chronological cell aging    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) occurring in non-dividing cells as they age as a result of reactive oxygen species, where the change varies according to the age of the cell or organism.
    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.
    GO:0072593    reactive oxygen species metabolic process    The chemical reactions and pathways involving a reactive oxygen species, any molecules or ions formed by the incomplete one-electron reduction of oxygen. They contribute to the microbicidal activity of phagocytes, regulation of signal transduction and gene expression, and the oxidative damage to biopolymers.
    GO:0019430    removal of superoxide radicals    Any process, acting at the cellular level, involved in removing superoxide radicals (O2-) from a cell or organism, e.g. by conversion to dioxygen (O2) and hydrogen peroxide (H2O2).
    GO:0001302    replicative cell aging    The process associated with progression of the cell from its inception to the end of its lifespan that occurs as the cell continues cycles of growth and division.
    GO:0006801    superoxide metabolic process    The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species.
cellular component
    GO:0005759    mitochondrial matrix    The gel-like material, with considerable fine structure, that lies in the matrix space, or lumen, of a mitochondrion. It contains the enzymes of the tricarboxylic acid cycle and, in some organisms, the enzymes concerned with fatty acid oxidation.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.


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 Related Entries

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

        SODM_YEAST | P004473lsu 3rn4 4e4e 4f6e

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3BFR)