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(-) Description

Title :  CRYSTALLOGRAPHIC STRUCTURE OF THIOREDOXIN FROM LITOPENAEUS VANNAMEI (PARTIALLY REDUCED).
 
Authors :  A. A. Campos-Acevedo, R. R. Sotelo-Mundo, E. Rudino-Pinera
Date :  16 Feb 12  (Deposition) - 06 Mar 13  (Release) - 05 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.54
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Oxidoreductase, Disulfide Reduction (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. A. Campos-Acevedo, K. D. Garcia-Orozco, R. R. Sotelo-Mundo, E. Rudino-Pinera
Expression, Purification, Crystallization And X-Ray Crystallographic Studies Of Different Redox States Of The Active Site Of Thioredoxin 1 From The Whiteleg Shrimp Litopenaeus Vannamei
Acta Crystallogr. , Sect. F V. 69 488 2013
PubMed-ID: 23695560  |  Reference-DOI: 10.1107/S1744309113010622

(-) Compounds

Molecule 1 - THIOREDOXIN
    Chains: A, B
    EC Number: 1.8.1.9
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: PET11A
    Expression System Vector Type: PLASMID
    Organism Common: WHITELEG SHRIMP
    Organism Scientific: LITOPENAEUS VANNAMEI
    Organism Taxid: 6689

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1ACT5Ligand/IonACETATE ION
2GOL4Ligand/IonGLYCEROL
3SO41Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS B:13 , GLU B:17 , ALA B:18 , GLY B:19 , ASN B:20 , LYS B:21BINDING SITE FOR RESIDUE SO4 B1106
02AC2SOFTWARELYS A:41 , GLU A:44 , ASN B:16 , GLY B:19 , ASN B:82 , HOH B:2026BINDING SITE FOR RESIDUE GOL A1106
03AC3SOFTWAREASP A:26 , TYR A:28 , CYS A:35 , ALA A:39 , LYS A:56 , ACT A:1109 , HOH A:2039 , HOH A:2042BINDING SITE FOR RESIDUE ACT A1107
04AC4SOFTWAREASN A:69 , LYS A:85 , HOH A:2017 , HOH A:2101 , HOH B:2051BINDING SITE FOR RESIDUE ACT A1108
05AC5SOFTWAREASN A:16 , ASN A:82 , GLY A:83 , HOH A:2019 , HOH A:2025 , LYS B:41 , GLU B:44 , HOH B:2045BINDING SITE FOR RESIDUE GOL B1107
06AC6SOFTWARETYR B:28 , CYS B:35 , ALA B:39 , LYS B:56 , HOH B:2033 , HOH B:2034BINDING SITE FOR RESIDUE GOL B1108
07AC7SOFTWARELYS B:6 , ASP B:7 , GLU B:61 , CYS B:62 , ASP B:64 , HOH B:2057BINDING SITE FOR RESIDUE ACT A1110
08AC8SOFTWAREMET A:1 , GLU A:43 , LYS A:56 , ACT A:1107BINDING SITE FOR RESIDUE ACT A1109
09AC9SOFTWAREASP A:7 , GLN A:8 , GLU A:9 , MET B:49 , ASP B:51 , LYS B:105 , HOH B:2089BINDING SITE FOR RESIDUE ACT B1109
10BC1SOFTWAREMET B:1 , LYS B:36 , GLN B:47 , HOH B:2001BINDING SITE FOR RESIDUE GOL B1110

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:32 -A:35
2A:73 -B:73
3B:32 -B:35

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4AJ8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4AJ8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4AJ8)

(-) Exons   (0, 0)

(no "Exon" information available for 4AJ8)

(-) Sequences/Alignments

Asymmetric/Biological 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:105
 aligned with B1PWB9_LITVA | B1PWB9 from UniProtKB/TrEMBL  Length:105

    Alignment length:105
                                    10        20        30        40        50        60        70        80        90       100     
         B1PWB9_LITVA     1 MVYQVKDQEDSTKQLNEAGNKLVVIDFYATWCGPCKMIAPKLEELSQSMSDVVFLKVDVDECEDIAQDNQIACMPTFLFMKNGQKLDSLSGANYDKLLELVEKNK 105
               SCOP domains d4aj8a_ A: automated matches                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..hhhhhhhhhhhh...eeeeeee...hhhhhhhhhhhhhhhhhh..eeeeeee...hhhhhhhh......eeeeee..eeeeeee..hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 4aj8 A   1 MVYQVKDQEDFTKQLNEAGNKLVVIDFYATWCGPCKMIAPKLEELSQSMSDVVFLKVDVDECEDIAQDNQIACMPTFLFMKNGQKLDSLSGANYDKLLELVEKNK 105
                                    10        20        30        40        50        60        70        80        90       100     


Chain B from PDB  Type:PROTEIN  Length:105
 aligned with B1PWB9_LITVA | B1PWB9 from UniProtKB/TrEMBL  Length:105

    Alignment length:105
                                    10        20        30        40        50        60        70        80        90       100     
         B1PWB9_LITVA     1 MVYQVKDQEDSTKQLNEAGNKLVVIDFYATWCGPCKMIAPKLEELSQSMSDVVFLKVDVDECEDIAQDNQIACMPTFLFMKNGQKLDSLSGANYDKLLELVEKNK 105
               SCOP domains d4aj8b_ B: automated matches                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..hhhhhhhhhhhh...eeeeeee...hhhhhhhhhhhhhhhhhh..eeeeeee...hhhhhhhh......eeeeee..eeeeeee..hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------- Transcript
                 4aj8 B   1 MVYQVKDQEDFTKQLNEAGNKLVVIDFYATWCGPCKMIAPKLEELSQSMSDVVFLKVDVDECEDIAQDNQIACMPTFLFMKNGQKLDSLSGANYDKLLELVEKNK 105
                                    10        20        30        40        50        60        70        80        90       100
   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/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4AJ8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4AJ8)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (B1PWB9_LITVA | B1PWB9)
molecular function
    GO:0015035    protein disulfide oxidoreductase activity    Catalysis of the reaction: a protein with reduced sulfide groups = a protein with oxidized disulfide bonds.
biological process
    GO:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    GO:0006662    glycerol ether metabolic process    The chemical reactions and pathways involving glycerol ethers, any anhydride formed between two organic hydroxy compounds, one of which is glycerol.
    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:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

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 Related Entries

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

UniProtKB/TrEMBL
        B1PWB9_LITVA | B1PWB9: 3zzx 4aj6 4aj7 4v2l 4v2m 4v2n 5g2z 5g30 5g31

(-) Related Entries Specified in the PDB File

3zzx CRYSTALLOGRAPHIC STRUCTURE OF THIOREDOXIN FROM LITOPENAEUS VANNAMEI
4aj6 CRYSTALLOGRAPHIC STRUCTURE OF THIOREDOXIN FROM LITOPENAEUS VANNAMEI (REDUCE FORM).
4aj7 CRYSTALLOGRAPHIC STRUCTURE OF THIOREDOXIN FROM LITOPENAEUS VANNAMEI (OXIDIZED FORM).