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(-) Description

Title :  STRUCTURE OF A MITOCHONDRIAL TYPE II PEROXIREDOXIN FROM PISUM SATIVUM
 
Authors :  F. J. Lopez-Jaramillo, S. Barranco-Medina, J. J. Lazaro, F. Santoyo- Gonzalez
Date :  11 May 07  (Deposition) - 27 May 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,F  (1x)
Biol. Unit 3:  D,E  (1x)
Keywords :  Alpha And Beta Protein, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. J. Lopez-Jaramillo, S. Barranco-Medina, J. J. Lazaro, F. Santoyo-Gonzalez
Structure Of A Mitochondrial Type Ii Peroxiredoxin From Pisum Sativum
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MITOCHONDRIAL PEROXIREDOXIN
    Chains: A, B, C, D, E, F
    EC Number: 1.11.1.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET3D_PRX
    Expression System Strain: BL21(DE3)
    Expression System Vector Type: PLASMID
    Gene: PRX
    Organism Common: GARDEN PEA
    Organism Scientific: PISUM SATIVUM

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): A C   
Biological Unit 2 (1x):  B   F
Biological Unit 3 (1x):    DE 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2PWJ)

(-) Sites  (0, 0)

(no "Site" information available for 2PWJ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2PWJ)

(-) 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:162
 aligned with Q6KBB1_PEA | Q6KBB1 from UniProtKB/TrEMBL  Length:199

    Alignment length:162
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197  
           Q6KBB1_PEA    38 LSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............ee...........eehhhhhh..eeeeee............hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhh......eeee...hhhhhhhh.eee.......eee..eeeeee..eeeeeee..........hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2pwj A  10 LSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 171
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169  


Chain B from PDB  Type:PROTEIN  Length:162
 aligned with Q6KBB1_PEA | Q6KBB1 from UniProtKB/TrEMBL  Length:199

    Alignment length:162
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197  
           Q6KBB1_PEA    38 LSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............ee...........eehhhhhh..eeeeee............hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhh......eeee...hhhhhhh..eee.......eee..eeeeee..eeeeeee..........hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2pwj B  10 LSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 171
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169  


Chain C from PDB  Type:PROTEIN  Length:163
 aligned with Q6KBB1_PEA | Q6KBB1 from UniProtKB/TrEMBL  Length:199

    Alignment length:163
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196   
           Q6KBB1_PEA    37 ILSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............ee...........eehhhhhh..eeeeee............hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhh......eeee...hhhhhhhh.eee.......eee..eeeeee..eeeeeee..........hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pwj C   9 ILSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 171
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168   


Chain D from PDB  Type:PROTEIN  Length:163
 aligned with Q6KBB1_PEA | Q6KBB1 from UniProtKB/TrEMBL  Length:199

    Alignment length:163
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196   
           Q6KBB1_PEA    37 ILSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............ee...........eehhhhhh..eeeeee............hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhh......eeee...hhhhhhhh.eee.hhhh..eee..eeeeee..eeeeeee..........hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pwj D   9 ILSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 171
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168   


Chain E from PDB  Type:PROTEIN  Length:163
 aligned with Q6KBB1_PEA | Q6KBB1 from UniProtKB/TrEMBL  Length:199

    Alignment length:163
                                    46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196   
           Q6KBB1_PEA    37 ILSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............ee...........eehhhhhh..eeeeee............hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhh......eeee...hhhhhhh..eee.hhhh..eee..eeeeee..eeeeeee..........hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2pwj E   9 ILSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 171
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168   


Chain F from PDB  Type:PROTEIN  Length:162
 aligned with Q6KBB1_PEA | Q6KBB1 from UniProtKB/TrEMBL  Length:199

    Alignment length:162
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197  
           Q6KBB1_PEA    38 LSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 199
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) Redoxin-2pwjF01 F:10-168                                                                                                                                       --- Pfam domains (1)
           Pfam domains (2) Redoxin-2pwjF02 F:10-168                                                                                                                                       --- Pfam domains (2)
           Pfam domains (3) Redoxin-2pwjF03 F:10-168                                                                                                                                       --- Pfam domains (3)
           Pfam domains (4) Redoxin-2pwjF04 F:10-168                                                                                                                                       --- Pfam domains (4)
           Pfam domains (5) Redoxin-2pwjF05 F:10-168                                                                                                                                       --- Pfam domains (5)
           Pfam domains (6) Redoxin-2pwjF06 F:10-168                                                                                                                                       --- Pfam domains (6)
         Sec.struct. author ............ee...........eehhhhhh..eeeeee............hhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhh......eeee...hhhhhh...eee.......eee..eeeeee..eeeeeee..........hhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2pwj F  10 LSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPYKHNIDKFKAKGVDSVICVAINDPYTVNAWAEKIQAKDAIEFYGDFDGSFHKSLELTTDLSAGLLGIRSERWSAYVVDGKVKALNVEESPSDVKVSGAETILGQI 171
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169
   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  (0, 0)

(no "SCOP Domain" information available for 2PWJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 6)

Asymmetric Unit
(-)
Clan: Thioredoxin (367)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (Q6KBB1_PEA | Q6KBB1)
molecular function
    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: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.

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