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(-) Description

Title :  THE STRUCTURE OF TRYPAREDOXIN PEROXIDASE I FROM LEISHMANIA MAJOR
 
Authors :  A. Fiorillo, A. Ilari, G. Colotti
Date :  16 Sep 11  (Deposition) - 05 Sep 12  (Release) - 12 Sep 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,C,D,E
Biol. Unit 1:  A,B,C,D,E  (2x)
Keywords :  Thioredoxin Fold, Peroxidase, Peroxiredoxin, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Fiorillo, G. Colotti, A. Boffi, P. Baiocco, A. Ilari
The Crystal Structures Of The Tryparedoxin-Tryparedoxin Peroxidase Couple Unveil The Structural Determinants Of Leishmania Detoxification Pathway.
Plos Negl Trop Dis V. 6 E1781 2012
PubMed-ID: 22928053  |  Reference-DOI: 10.1371/JOURNAL.PNTD.0001781

(-) Compounds

Molecule 1 - TRYPAREDOXIN PEROXIDASE
    Chains: A, B, C, D, E
    EC Number: 1.11.1.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TRYP3, LMJF_15_1080
    Organism Scientific: LEISHMANIA MAJOR
    Organism Taxid: 5664

 Structural Features

(-) Chains, Units

  12345
Asymmetric Unit : ABCDE
Biological Unit 1 (2x): ABCDE

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3TUE)

(-) Sites  (0, 0)

(no "Site" information available for 3TUE)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3TUE)

(-) Exons   (0, 0)

(no "Exon" information available for 3TUE)

(-) 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:166
 aligned with Q4QF76_LEIMA | Q4QF76 from UniProtKB/TrEMBL  Length:199

    Alignment length:166
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163      
         Q4QF76_LEIMA     4 GNAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPMLADKTKSIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEKH 169
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeeee.....eeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhhh........eee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3tue A   4 GNAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPILADKTKNIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEKH 169
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163      


Chain B from PDB  Type:PROTEIN  Length:164
 aligned with Q4QF76_LEIMA | Q4QF76 from UniProtKB/TrEMBL  Length:199

    Alignment length:164
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164    
         Q4QF76_LEIMA     5 NAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPMLADKTKSIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEK 168
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeee.....eeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhhh........eee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3tue B   5 NAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPILADKTKNIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEK 168
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164    


Chain C from PDB  Type:PROTEIN  Length:164
 aligned with Q4QF76_LEIMA | Q4QF76 from UniProtKB/TrEMBL  Length:199

    Alignment length:164
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164    
         Q4QF76_LEIMA     5 NAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPMLADKTKSIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEK 168
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeee.....eeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhhh........eee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3tue C   5 NAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPILADKTKNIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEK 168
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164    


Chain D from PDB  Type:PROTEIN  Length:164
 aligned with Q4QF76_LEIMA | Q4QF76 from UniProtKB/TrEMBL  Length:199

    Alignment length:164
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164    
         Q4QF76_LEIMA     5 NAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPMLADKTKSIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEK 168
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeee.....eeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhhhhh........eee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3tue D   5 NAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPILADKTKNIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEK 168
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164    


Chain E from PDB  Type:PROTEIN  Length:164
 aligned with Q4QF76_LEIMA | Q4QF76 from UniProtKB/TrEMBL  Length:199

    Alignment length:164
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164    
         Q4QF76_LEIMA     5 NAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPMLADKTKSIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEK 168
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeee.....eeeee.hhhh..eeeeee.........hhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhh.............eee...hhhhhhh..ee....ee.eeeeee.....eeeeeee......hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3tue E   5 NAKINSPAPSFEEVALMPNGSFKKISLSSYKGKWVVLFFYPLDFTFVCPTEVIAFSDSVSRFNELNCEVLACSIDSEYAHLQWTLQDRKKGGLGTMAIPILADKTKNIARSYGVLEESQGVAYRGLFIIDPHGMLRQITVNDMPVGRSVEEVLRLLEAFQFVEK 168
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164
   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 3TUE)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3TUE)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E   (Q4QF76_LEIMA | Q4QF76)
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.
    GO:0004601    peroxidase activity    Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
    GO:0051920    peroxiredoxin activity    Catalysis of the reaction: 2 R'-SH + ROOH = R'-S-S-R' + H2O + ROH.
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.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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        Q4QF76_LEIMA | Q4QF76: 4k1f

(-) Related Entries Specified in the PDB File

3s9f TRYPAREDOXIN I FROM LEISHMANIA MAJOR