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(-) Description

Title :  THE STRUCTURE OF TRYPAREDOXIN I FROM LEISHMANIA MAJOR
 
Authors :  A. Fiorillo, A. Ilari, G. Colotti
Date :  01 Jun 11  (Deposition) - 13 Jun 12  (Release) - 02 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Thioredoxin Fold, Disulfide Reductase, Electron Transport (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
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: TXN1, LMJF_29_1160
    Organism Scientific: LEISHMANIA MAJOR
    Organism Taxid: 5664
    Strain: FRIEDLIN

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
1MG5Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:112 , THR A:125 , ARG A:126 , ALA A:127 , ARG A:128 , HOH A:180BINDING SITE FOR RESIDUE MG A 146
2AC2SOFTWAREARG A:15 , PRO A:90 , PHE A:91 , HOH A:158 , HOH A:159BINDING SITE FOR RESIDUE MG A 147
3AC3SOFTWAREASN A:93 , ASN A:95 , ILE A:96BINDING SITE FOR RESIDUE MG A 148
4AC4SOFTWAREHIS A:7 , GLU A:10 , ALA A:11 , HOH A:178 , HOH A:187BINDING SITE FOR RESIDUE MG A 149
5AC5SOFTWAREHIS A:58 , HOH A:169 , HOH A:170 , HOH A:171 , HOH A:172 , HOH A:175 , HOH A:176BINDING SITE FOR RESIDUE MG A 150

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:40 -A:43

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ile A:109 -Pro A:110
2Phe A:140 -Pro A:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3S9F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3S9F)

(-) Exons   (0, 0)

(no "Exon" information available for 3S9F)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:144
 aligned with E9ADX4_LEIMA | E9ADX4 from UniProtKB/TrEMBL  Length:145

    Alignment length:144
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141    
         E9ADX4_LEIMA     2 SGVAKHLGEALKLRKQADTADMDSLSGKTVFFYFSASWCPPCRGFTPQLVEFYEKHHDSKNFEIILASWDEEEDDFNAYYAKMPWLSIPFANRNIVEALTKKYSVESIPTLIGLNADTGDTVTTRARHALTQDPMGEQFPWRDE 145
               SCOP domains d3s9fa_ A: automated matches                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhh..eee..eee.hhhhh..eeeeeee...hhhhhhhhhhhhhhhhhhh....eeeeeee...hhhhhhhhhh....ee....hhhhhhhhhhhh......eeeeee.....eee.hhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3s9f A   2 SGVAKHLGEALKLRKQADTADMDSLSGKTVFFYFSASWCPPCRGFTPQLVEFYEKHHDSKNFEIILASWDEEEDDFNAYYAKMPWLSIPFANRNIVEALTKKYSVESIPTLIGLNADTGDTVTTRARHALTQDPMGEQFPWRDE 145
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3S9F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3S9F)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (E9ADX4_LEIMA | E9ADX4)
biological process
    GO:0042744    hydrogen peroxide catabolic process    The chemical reactions and pathways resulting in the breakdown of hydrogen peroxide (H2O2).
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

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