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(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE ENZYME FE-SUPEROXIDE DISMUTASE FROM TRYPANOSOMA CRUZI
 
Authors :  M. V. A. S. Navarro, R. C. Garratt
Date :  17 Apr 06  (Deposition) - 28 Aug 07  (Release) - 18 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Alpha+Beta Structure, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. F. Bachega, M. V. Navarro, L. Bleicher, R. K. Bortoleto-Bugs, D. Dive, P. Hoffmann, E. Viscogliosi, R. C. Garratt
Systematic Structural Studies Of Iron Superoxide Dismutases From Human Parasites And A Statistical Coupling Analysis Of Metal Binding Specificity
Proteins V. 77 26 2009
PubMed-ID: 19384994  |  Reference-DOI: 10.1002/PROT.22412
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IRON SUPEROXIDE DISMUTASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: TRYPANOSOMA CRUZI
    Organism Taxid: 5693

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1FE22Ligand/IonFE (II) ION
2MG1Ligand/IonMAGNESIUM ION
3OCS2Mod. Amino AcidCYSTEINESULFONIC ACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:27 , HIS A:75 , ASP A:160 , HIS A:164 , HOH A:505BINDING SITE FOR RESIDUE FE2 A 195
2AC2SOFTWAREHOH A:497 , HOH A:498 , HOH A:499 , HOH A:500 , HOH A:501BINDING SITE FOR RESIDUE MG A 496
3AC3SOFTWAREHIS B:27 , HIS B:75 , ASP B:160 , HIS B:164 , HOH B:196BINDING SITE FOR RESIDUE FE2 B 195

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2GPC)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2GPC)

(-) 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:194
 aligned with Q4DI29_TRYCC | Q4DI29 from UniProtKB/TrEMBL  Length:195

    Alignment length:194
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191    
         Q4DI29_TRYCC     2 VFSIPPLPWGYDGLAAKGLSKQQVTLHYDKHHQGYVTKLNAAAQTNSALATKSIEEIIRTEKGPIFNLAAQIFNHTFYWESMCPNGGGEPTGKVADEINASFGSFAKFKEEFTNVAVGHFGSGWAWLVKDTNSGKLKVYQTHDAGCPLTEPNLKPLLTCDVWEHAYYVDYKNDRAAYVQTFWNVVNWKNVERQL 195
               SCOP domains d2gpca1 A:1-84 automated matches                                                    d2gpca2 A:85-194 automated matches                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee.....eeeeeee...hhhhh..eeeeeeee.hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gpc A   1 MFSIPPLPWGYDGLAAKGLSKQQVTLHYDKHHQGYVTKLNAAAQTNSALATKSIEEIIRTEKGPIFNLAAQIFNHTFYWESMcPNGGGEPTGKVADEINASFGSFAKFKEEFTNVAVGHFGSGWAWLVKDTNSGKLKVYQTHDAGCPLTEPNLKPLLTCDVWEHAYYVDYKNDRAAYVQTFWNVVNWKNVERQL 194
                                    10        20        30        40        50        60        70        80  |     90       100       110       120       130       140       150       160       170       180       190    
                                                                                                             83-OCS                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:194
 aligned with Q4DI29_TRYCC | Q4DI29 from UniProtKB/TrEMBL  Length:195

    Alignment length:194
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191    
         Q4DI29_TRYCC     2 VFSIPPLPWGYDGLAAKGLSKQQVTLHYDKHHQGYVTKLNAAAQTNSALATKSIEEIIRTEKGPIFNLAAQIFNHTFYWESMCPNGGGEPTGKVADEINASFGSFAKFKEEFTNVAVGHFGSGWAWLVKDTNSGKLKVYQTHDAGCPLTEPNLKPLLTCDVWEHAYYVDYKNDRAAYVQTFWNVVNWKNVERQL 195
               SCOP domains d2gpcb1 B:1-84 automated matches                                                    d2gpcb2 B:85-194 automated matches                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee.....eeeeeee...hhhhh..eeeeeeee.hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gpc B   1 MFSIPPLPWGYDGLAAKGLSKQQVTLHYDKHHQGYVTKLNAAAQTNSALATKSIEEIIRTEKGPIFNLAAQIFNHTFYWESMcPNGGGEPTGKVADEINASFGSFAKFKEEFTNVAVGHFGSGWAWLVKDTNSGKLKVYQTHDAGCPLTEPNLKPLLTCDVWEHAYYVDYKNDRAAYVQTFWNVVNWKNVERQL 194
                                    10        20        30        40        50        60        70        80  |     90       100       110       120       130       140       150       160       170       180       190    
                                                                                                             83-OCS
   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 2GPC)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2GPC)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q4DI29_TRYCC | Q4DI29)
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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2goj THE FE-SUPEROXIDE DISMUTASE FROM PLASMODIUM FALCIPARUM