Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF GST MUTATED WITH HALOGENATED TYROSINE (7CGST-1)
 
Authors :  R. Akasaka, M. Kawazoe, Y. Tomabechi, K. Ohtake, T. Itagaki, C. Takemot M. Shirouzu, S. Yokoyama, K. Sakamoto
Date :  23 Oct 14  (Deposition) - 19 Aug 15  (Release) - 19 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.93
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Themostabilized Structure, Homodimeric, Two Domains, Alfa/Beta, Alfa, Detoxification, Xenobiotic Compounds, Gutathione, 7 Specfic Sites, Cytoplasmic, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Ohtake, A. Yamaguchi, T. Mukai, H. Kashimura, N. Hirano, M. Haruki, S. Kohashi, K. Yamagishi, K. Murayama, Y. Tomabechi, T. Itagaki, R. Akasaka, M. Kawazoe, C. Takemoto, M. Shirouzu, S. Yokoyama, K. Sakamoto
Protein Stabilization Utilizing A Redefined Codon
Sci Rep V. 5 9762 2015
PubMed-ID: 25985257  |  Reference-DOI: 10.1038/SREP09762

(-) Compounds

Molecule 1 - GLUTATHIONE S-TRANSFERASE CLASS-MU 26 KDA ISOZYME
    Chains: A
    EC Number: 2.5.1.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PBR322
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Common: BLOOD FLUKE
    Organism Scientific: SCHISTOSOMA JAPONICUM
    Organism Taxid: 6182
    Synonym: 7CGST-1,GST 26,SJ26 ANTIGEN,SJGST

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 10)
No.NameCountTypeFull Name
13CT7Mod. Amino Acid3-CHLORO-L-TYROSINE
2GSH1Ligand/IonGLUTATHIONE
3SO42Ligand/IonSULFATE ION
Biological Unit 1 (3, 20)
No.NameCountTypeFull Name
13CT14Mod. Amino Acid3-CHLORO-L-TYROSINE
2GSH2Ligand/IonGLUTATHIONE
3SO44Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:6 , TRP A:7 , LEU A:12 , TRP A:40 , LYS A:44 , ASN A:53 , LEU A:54 , PRO A:55 , GLN A:66 , SER A:67 , ASP A:100 , HOH A:419 , HOH A:433 , HOH A:436 , HOH A:450binding site for residue GSH A 301
2AC2SOFTWAREARG A:34 , GLY A:212 , ASP A:213binding site for residue SO4 A 302
3AC3SOFTWAREGLY A:83 , PRO A:85 , ARG A:88binding site for residue SO4 A 303
4AC4SOFTWARESER A:-1 , PRO A:2 , ILE A:3 , LYS A:26 , GLU A:28 , ILE A:58 , ASP A:59 , GLY A:60 , PRO A:126 , GLU A:127 , HOH A:404 , HOH A:431binding site for Ligand residues 3CT A 0 through SER A 1 bound to SER A -1

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4WR5)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Leu A:54 -Pro A:55
2Trp A:200 -Pro A:201

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4WR5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4WR5)

(-) Exons   (0, 0)

(no "Exon" information available for 4WR5)

(-) 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:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..hhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhh........eee....eeehhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh...................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wr5 A  -1 SySPILGYWKIKGLVQPTRLLLEyLEEKYEEHLyERDEGDKWRNKKFELGLEFPNLPYyIDGDVKLTQSMAIIRyIADKHNMLGGCPKERAEISMLEGAVLDIRYGVSRIAYSKDFETLKVDFLSKLPEMLKMFEDRLCHKTyLNGDHVTHPDFMLYDALDVVLyMDPMCLDAFPKLVCFKKRIEAIPQIDKYLKSSKYIAWPLQGWQATFGGGDHPP 216
                             |       8        18   |    28   |    38        48        58        68    |   78        88        98       108       118       128       138  |    148       158    |  168       178       188       198       208        
                             |                    22-3CT    32-3CT                   57-3CT          73-3CT                                                             141-3CT               163-3CT                                                 
                             0-3CT
   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 4WR5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4WR5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4WR5)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    3CT  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GSH  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Leu A:54 - Pro A:55   [ RasMol ]  
    Trp A:200 - Pro A:201   [ RasMol ]  
 
Biological Unit
  Complete Structure
    Biological Unit 1  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4wr5
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  GST26_SCHJA | P08515
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  2.5.1.18
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  GST26_SCHJA | P08515
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        GST26_SCHJA | P08515: 1b8x 1bg5 1dug 1gne 1gta 1gtb 1m99 1m9a 1m9b 1u87 1u88 1ua5 1y6e 3crt 3cru 3d0z 3qmz 4ai6 4akg 4akh 4aki 4ecb 4ecc 4wr4 5gzz

(-) Related Entries Specified in the PDB File

4wr4