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(-) Description

Title :  THE CRYSTAL STRUCTURE OF A DOMAIN OF POSSIBLE THIOL-DISULFIDE ISOMERASE FROM CYTOPHAGA HUTCHINSONII ATCC 33406.
 
Authors :  K. Tan, N. Marshall, G. Cobb, A. Joachimiak, Midwest Center For Stru Genomics (Mcsg)
Date :  06 May 09  (Deposition) - 19 May 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.88
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Apc61559. 2, Thiol-Disulfide Isomerase, Cytophaga Hutchinsonii Atcc, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Isomerase, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tan, N. Marshall, G. Cobb, A. Joachimiak
The Crystal Structure Of A Domain Of Possible Thiol-Disulfide Isomerase From Cytophaga Hutchinsonii Atcc 33406.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - POSSIBLE THIOL-DISULFIDE ISOMERASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: PPK1037
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 330-474
    Gene: CHU_0134, CYTOPHAGA HUTCHINSONII
    Organism Scientific: CYTOPHAGA HUTCHINSONII
    Organism Taxid: 269798
    Strain: ATCC 33406

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1FMT1Ligand/IonFORMIC ACID
2MSE1Mod. Amino AcidSELENOMETHIONINE
3SO45Ligand/IonSULFATE ION
Biological Unit 1 (3, 7)
No.NameCountTypeFull Name
1FMT1Ligand/IonFORMIC ACID
2MSE1Mod. Amino AcidSELENOMETHIONINE
3SO45Ligand/IonSULFATE ION
Biological Unit 2 (3, 14)
No.NameCountTypeFull Name
1FMT2Ligand/IonFORMIC ACID
2MSE2Mod. Amino AcidSELENOMETHIONINE
3SO410Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:11 , HOH A:44 , HOH A:81 , HOH A:92 , HOH A:122 , PRO A:338 , ASN A:339 , TYR A:349 , TYR A:353 , LYS A:424BINDING SITE FOR RESIDUE SO4 A 1
2AC2SOFTWARELYS A:401 , ASP A:402 , GLU A:403BINDING SITE FOR RESIDUE SO4 A 2
3AC3SOFTWAREHOH A:69 , HOH A:83 , ARG A:350 , GLN A:392 , ARG A:454BINDING SITE FOR RESIDUE SO4 A 3
4AC4SOFTWAREHOH A:117 , ALA A:357 , LYS A:358 , GLY A:390 , TYR A:436BINDING SITE FOR RESIDUE SO4 A 4
5AC5SOFTWAREHOH A:89 , HOH A:108 , ARG A:400 , THR A:427 , ASP A:428 , PHE A:429 , LYS A:430BINDING SITE FOR RESIDUE SO4 A 5
6AC6SOFTWAREHOH A:42BINDING SITE FOR RESIDUE FMT A 475

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:372 -A:372

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Thr A:438 -Pro A:439

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:147
 aligned with Q11YT9_CYTH3 | Q11YT9 from UniProtKB/TrEMBL  Length:474

    Alignment length:147
                                   337       347       357       367       377       387       397       407       417       427       437       447       457       467       
         Q11YT9_CYTH3   328 LDPLLLGKKAPNLYMTDTTGTYRYLYDVQAKYTILFFWDSQCGHCQQETPKLYDWWLKNRAKGIQVYAANIERKDEEWLKFIRSKKIGGWLNVRDSKNHTDFKITYDIYATPVLYVLDKNKVIIAKRIGYENLDDFLVQYEKSLKTK 474
               SCOP domains d3hcza_ A: automated matches                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......................hhhhh...eeeeeeehhhhh...hhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhh....eeee......hhhhhhh.....eeeee.....eeee..hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hcz A 328 NAPLLLGKKAPNLYmTDTTGTYRYLYDVQAKYTILFFWDSQCGHCQQETPKLYDWWLKNRAKGIQVYAANIERKDEEWLKFIRSKKIGGWLNVRDSKNHTDFKITYDIYATPVLYVLDKNKVIIAKRIGYENLDDFLVQYEKSLKTK 474
                                   337    |  347       357       367       377       387       397       407       417       427       437       447       457       467       
                                        342-MSE
   Legend:   → Mismatch (orange background)
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 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 3HCZ)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q11YT9_CYTH3 | Q11YT9)
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:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    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.

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