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(-) Description

Title :  THE 2.1 ANGSTROMS RESOLUTION STRUCTURE OF IRON SUPEROXIDE DISMUTASE FROM PSEUDOMONAS OVALIS
 
Authors :  B. L. Stoddard, D. Ringe, G. A. Petsko
Date :  06 May 91  (Deposition) - 15 Apr 93  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Oxidoreductase (Superoxide Acceptor) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. L. Stoddard, P. L. Howell, D. Ringe, G. A. Petsko
The 2. 1-A Resolution Structure Of Iron Superoxide Dismutase From Pseudomonas Ovalis.
Biochemistry V. 29 8885 1990
PubMed-ID: 2271564  |  Reference-DOI: 10.1021/BI00490A002
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IRON SUPEROXIDE DISMUTASE
    Chains: A, B
    EC Number: 1.15.1.1
    Engineered: YES
    Organism Scientific: PSEUDOMONAS PUTIDA
    Organism Taxid: 303

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1FE2Ligand/IonFE (III) ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:26 , HIS A:74 , ASP A:156 , HIS A:160BINDING SITE FOR RESIDUE FE A 196
2AC2SOFTWAREHIS B:26 , HIS B:74 , ASP B:156 , HIS B:160BINDING SITE FOR RESIDUE FE B 196
3FEAUNKNOWNHIS A:26 , HIS A:74 , ASP A:156 , HIS A:160 , FE A:196NULL
4FEBUNKNOWNHIS B:26 , HIS B:74 , ASP B:156 , HIS B:160 , FE B:196NULL

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3SDP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SOD_MNPS00088 Manganese and iron superoxide dismutases signature.SODF_PSEPU157-164
 		  2A:156-163
B:156-163

(-) Exons   (0, 0)

(no "Exon" information available for 3SDP)

(-) 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:186
 aligned with SODF_PSEPU | P09223 from UniProtKB/Swiss-Prot  Length:198

    Alignment length:189
                                                                     47                                                                                                                                                  
                                                                   46 |                                                                                                                                                  
                                    15        25        35        45| |     54        64        74        84        94       104       114       124       134       144       154       164       174       184         
           SODF_PSEPU     6 PPLPYAHDALQPHISKETLEFHHDKHHNTYVVNLNNLVPGT-EFEGKTLEEIVKTSSGGIFNNAAQVWNHTFYWNCLAPNAGGQPTGALADAINAAFGSFDKFKEEFTKTSVGTFGSGWGWLVKKADGSLALASTIGAGCPLTSGDTPLLTCDVWEHAYYIDYRNLRPKYVEAFWNLVNWAFVAEQFEG 193
               SCOP domains d3sdpa1 A:5-83 Fe superoxide dismutase (FeSOD)                                 d3sdpa2 A:84-190 Fe superoxide dismutase (FeS OD)                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............hhhhhhhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhh...........hhhhhhhhhhh.hhhhhhhhhh..........eeeeee-ee.eeeeeeee.........eeeeeeeee.........hhhhhhhhhhhhh...hhhhhh--hh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------SOD_MN  ----------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sdp A   5 PPLPYAHDALQPHISKETLEYHHDKHHNTYVVNLNNLVPGTPEFEGKTLEEIVKSSSGGIFNNAAQVWNHTFYWNCLSPDAGGQPTGALADAINAAFGSFDKFKEEFTKTSVGTFGSGWAWLVK-ADGSLALCSTIGAGAPLTSGDTPLLTCDVWEHAYYIDYRNLRPKYVEAFWNLVNWAFVAE--EG 190
                                    14        24        34        44        54        64        74        84        94       104       114       124   | | 133       143       153       163       173       183    |  | 
                                                                                                                                                     128 |                                                        188  | 
                                                                                                                                                       129                                                           189 


Chain B from PDB  Type:PROTEIN  Length:186
 aligned with SODF_PSEPU | P09223 from UniProtKB/Swiss-Prot  Length:198

    Alignment length:189
                                                                     47                                                                                                                                                  
                                                                   46 |                                                                                                                                                  
                                    15        25        35        45| |     54        64        74        84        94       104       114       124       134       144       154       164       174       184         
           SODF_PSEPU     6 PPLPYAHDALQPHISKETLEFHHDKHHNTYVVNLNNLVPGT-EFEGKTLEEIVKTSSGGIFNNAAQVWNHTFYWNCLAPNAGGQPTGALADAINAAFGSFDKFKEEFTKTSVGTFGSGWGWLVKKADGSLALASTIGAGCPLTSGDTPLLTCDVWEHAYYIDYRNLRPKYVEAFWNLVNWAFVAEQFEG 193
               SCOP domains d3sdpb1 B:5-83 Fe superoxide dismutase (FeSOD)                                 d3sdpb2 B:84-190 Fe superoxide dismutase (FeS OD)                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) Sod_Fe_N-3sdpB03 B:5-82                                                       ----Sod_Fe_C-3sdpB01 B:87-188                 -                                                            ---- Pfam domains (1)
           Pfam domains (2) Sod_Fe_N-3sdpB04 B:5-82                                                       ----Sod_Fe_C-3sdpB02 B:87-188                 -                                                            ---- Pfam domains (2)
         Sec.struct. author ...............hhhhhhhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhh...........hhhhhhhhhhh.hhhhhhhhhh..........eeeeee-ee.eeeeeeee.........eeeeeeeee.........hhhhhhhhhhhhh...hhhhhh--hh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------SOD_MN  ----------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sdp B   5 PPLPYAHDALQPHISKETLEYHHDKHHNTYVVNLNNLVPGTPEFEGKTLEEIVKSSSGGIFNNAAQVWNHTFYWNCLSPDAGGQPTGALADAINAAFGSFDKFKEEFTKTSVGTFGSGWAWLVK-ADGSLALCSTIGAGAPLTSGDTPLLTCDVWEHAYYIDYRNLRPKYVEAFWNLVNWAFVAE--EG 190
                                    14        24        34        44        54        64        74        84        94       104       114       124   | | 133       143       153       163       173       183    |  | 
                                                                                                                                                     128 |                                                        188  | 
                                                                                                                                                       129                                                           189
   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  (2, 4)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Sod_Fe_C] (46)
(-)
Clan: no clan defined [family: Sod_Fe_N] (46)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (SODF_PSEPU | P09223)
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: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: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:0006801    superoxide metabolic process    The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species.

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        SODF_PSEPU | P09223: 1dt0

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