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(-) Description

Title :  SUPEROXIDE DISMUTASE PROTEIN FROM PLASMODIUM BERGHEI
 
Authors :  M. A. Holmes, E. A. Merritt, Structural Genomics Of Pathogenic Pro Consortium (Sgpp)
Date :  15 Jun 05  (Deposition) - 21 Jun 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.33
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A,B  (2x)
Keywords :  Structural Genomics, Psi, Protein Structure Initiative, Structural Genomics Of Pathogenic Protozoa Consortium, Sgpp, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Holmes, E. A. Merritt, Structural Genomics Of Pathogenic Protozoa Consortium (Sgpp
Hypothetical Protein From Plasmodium Berghei
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - FE-SUPEROXIDE DISMUTASE HOMOLOG
    Chains: A, B
    EC Number: 1.15.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PB000490.02.0
    Organism Scientific: PLASMODIUM BERGHEI
    Organism Taxid: 5821

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1MN2Ligand/IonMANGANESE (II) ION
2ZN1Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MN-1Ligand/IonMANGANESE (II) ION
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1MN-1Ligand/IonMANGANESE (II) ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:27 , HIS A:74 , ASP A:158 , HIS A:162 , HOH A:301BINDING SITE FOR RESIDUE MN A 200
2AC2SOFTWAREHIS B:27 , HIS B:74 , ASP B:158 , HIS B:162 , HOH B:302BINDING SITE FOR RESIDUE MN B 300
3AC3SOFTWAREHIS A:18 , HOH A:515 , HOH A:516 , GLU B:22BINDING SITE FOR RESIDUE ZN A 600

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2A03)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ser A:16 -Pro A:17
2Ser B:16 -Pro B:17

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2A03)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2A03)

(-) Exons   (0, 0)

(no "Exon" information available for 2A03)

(-) 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:197
 aligned with Q4YW77_PLABA | Q4YW77 from UniProtKB/TrEMBL  Length:198

    Alignment length:197
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       
         Q4YW77_PLABA     1 MAITLPKLKYALNALSPHISEETLSFHYNKHHAGYVNKLNGLIKDTPLANKSLTDILKESTGAIFNNAAQIWNHSFYWDSMGPNCGGEPHGEIKEKIQEDFGSFNNFKDQFSNVLCGHFGSGWGWLALNKNNKLVILQTHDAGNPIKENTGIPILTCDVWEHAYYIDYRNDRLSYVKAWWNLVNWNFANENLKNALN 197
               SCOP domains d2a03a1 A:1-84 automated matches                                                    d2a03a2 A:85-197 automated matches                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee.....eeeeeee...........eeeeeee.hhhhhhhhhh.hhhhhhhhhh...hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2a03 A   1 MAITLPKLKYALNALSPHISEETLSFHYNKHHAGYVNKLNGLIKDTPLANKSLTDILKESTGAIFNNAAQIWNHSFYWDSMGPNCGGEPHGEIKEKIQEDFGSFNNFKDQFSNVLCGHFGSGWGWLALNKNNKLVILQTHDAGNPIKENTGIPILTCDVWEHAYYIDYRNDRLSYVKAWWNLVNWNFANENLKNALN 197
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       


Chain B from PDB  Type:PROTEIN  Length:197
 aligned with Q4YW77_PLABA | Q4YW77 from UniProtKB/TrEMBL  Length:198

    Alignment length:197
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       
         Q4YW77_PLABA     1 MAITLPKLKYALNALSPHISEETLSFHYNKHHAGYVNKLNGLIKDTPLANKSLTDILKESTGAIFNNAAQIWNHSFYWDSMGPNCGGEPHGEIKEKIQEDFGSFNNFKDQFSNVLCGHFGSGWGWLALNKNNKLVILQTHDAGNPIKENTGIPILTCDVWEHAYYIDYRNDRLSYVKAWWNLVNWNFANENLKNALN 197
               SCOP domains d2a03b1 B:1-84 automated matches                                                    d2a03b2 B:85-197 automated matches                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee.....eeeeeee...........eeeeeee.hhhhhhhhhh.hhhhhhhhhh...hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2a03 B   1 MAITLPKLKYALNALSPHISEETLSFHYNKHHAGYVNKLNGLIKDTPLANKSLTDILKESTGAIFNNAAQIWNHSFYWDSMGPNCGGEPHGEIKEKIQEDFGSFNNFKDQFSNVLCGHFGSGWGWLALNKNNKLVILQTHDAGNPIKENTGIPILTCDVWEHAYYIDYRNDRLSYVKAWWNLVNWNFANENLKNALN 197
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2A03)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2A03)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q4YW77_PLABA | Q4YW77)
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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  2a03
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  Q4YW77_PLABA | Q4YW77
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  1.15.1.1
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 Related Entries

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