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(-) Description

Title :  CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM ANTIOXIDANT PROTEIN (1-CYS PEROXIREDOXIN)
 
Authors :  G. N. Sarma, M. Fischer, C. Nickel, K. Becker, P. A. Karplus
Date :  22 Sep 04  (Deposition) - 15 Feb 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Alpha-Aneurysm, Thioredoxin Fold, Peroxiredoxin Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. N. Sarma, C. Nickel, S. Rahlfs, M. Fischer, K. Becker, P. A. Karplus
Crystal Structure Of A Novel Plasmodium Falciparum 1-Cys Peroxiredoxin.
J. Mol. Biol. V. 346 1021 2005
PubMed-ID: 15701514  |  Reference-DOI: 10.1016/J.JMB.2004.12.022
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PEROXIREDOXIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE30
    Expression System Strain: M15
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 60-240
    Organism Common: MALARIA PARASITE P. FALCIPARUM
    Organism Scientific: PLASMODIUM FALCIPARUM
    Organism Taxid: 5833
    Synonym: PFAOP

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1OCS2Mod. Amino AcidCYSTEINESULFONIC ACID
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1OCS1Mod. Amino AcidCYSTEINESULFONIC ACID
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1OCS1Mod. Amino AcidCYSTEINESULFONIC ACID

(-) Sites  (0, 0)

(no "Site" information available for 1XIY)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1XIY)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1XIY)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1XIY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1XIY)

(-) Exons   (0, 0)

(no "Exon" information available for 1XIY)

(-) 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:172
 aligned with Q5MYR6_PLAF7 | Q5MYR6 from UniProtKB/TrEMBL  Length:240

    Alignment length:180
                                    68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238
         Q5MYR6_PLAF7    59 IKENDLIPNVKVMIDVRNMNNISDTDGSPNDFTSIDTHELFNNKKILLISLPGAFTPTCSTKMIPGYEEEYDYFIKENNFDDIYCITNNDIYVLKSWFKSMDIKKIKYISDGNSSFTESMNMLVDKSNFFMGMRPWRFVAIVENNILVKMFQEKDKQHNIQTDPYDISTVNNVKEFLKNN 238
               SCOP domains -d1xiya1 A:2-180 1-Cy        s peroxiredoxin                                                                                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........eeeeehhhhh.--------..eeeeehhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhhh.....eeeeee..hhhhhhhhhhhh.....eeee...hhhhhhh..eee.hhhh..eee..eeeeee..eeeeeee................hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1xiy A   1 MKENDLIPNVKVMIDVRNMNN--------NDFTSIDTHELFNNKKILLISLPGAFTPTcSTKMIPGYEEEYDYFIKENNFDDIYCITNNDIYVLKSWFKSMDIKKIKYISDGNSSFTDSMNMLVDKSNFFMGMRPWRFVAIVENNILVKMFQEKDKQHNIQTDPYDISTVNNVKEFLKNN 180
                                    10        20|       30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180
                                               21       30                           59-OCS                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:178
 aligned with Q5MYR6_PLAF7 | Q5MYR6 from UniProtKB/TrEMBL  Length:240

    Alignment length:178
                                    70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230        
         Q5MYR6_PLAF7    61 ENDLIPNVKVMIDVRNMNNISDTDGSPNDFTSIDTHELFNNKKILLISLPGAFTPTCSTKMIPGYEEEYDYFIKENNFDDIYCITNNDIYVLKSWFKSMDIKKIKYISDGNSSFTESMNMLVDKSNFFMGMRPWRFVAIVENNILVKMFQEKDKQHNIQTDPYDISTVNNVKEFLKNN 238
               SCOP domains d1xiyb_ B: 1-Cys peroxiredoxin                                                                                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeehhhhh...........eeeeehhhhh...eeeeee.....hhhhhhhhhhhhhhhhhhhhh.....eeeeee..hhhhhhhhhhhh.....eeee...hhhhhhh..eee.hhhh..eee..eeeeee..eeeeeee................hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1xiy B   3 ENDLIPNVKVMIDVRNMNNISDTDGSPNDFTSIDTHELFNNKKILLISLPGAFTPTcSTKMIPGYEEEYDYFIKENNFDDIYCITNNDIYVLKSWFKSMDIKKIKYISDGNSSFTDSMNMLVDKSNFFMGMRPWRFVAIVENNILVKMFQEKDKQHNIQTDPYDISTVNNVKEFLKNN 180
                                    12        22        32        42        52      | 62        72        82        92       102       112       122       132       142       152       162       172        
                                                                                   59-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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1XIY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1XIY)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q5MYR6_PLAF7 | Q5MYR6)
molecular function
    GO:0016209    antioxidant activity    Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage.
    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.
biological process
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    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:0020011    apicoplast    The plastid organelle found in apicomplexans.

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 Related Entries

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        Q5MYR6_PLAF7 | Q5MYR6: 4d73

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