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(-) Description

Title :  GLUTATHIONE TRANSFERASE FROM GLYCINE MAX
 
Authors :  I. Axarli, P. Dhavala, A. C. Papageorgiou, N. E. Labrou
Date :  08 Feb 08  (Deposition) - 02 Dec 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Herbicide, Glycine Max, Transferase, Tau Class Gst, S-(P-Nitrobenzyl- Glutathione) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Axarli, P. Dhavala, A. C. Papageorgiou, N. E. Labrou
Crystallographic And Functional Characterization Of The Fluorodifen-Inducible Glutathione Transferase From Glycine Max Reveals An Active Site Topography Suited For Diphenylether Herbicides And A Novel L-Site.
J. Mol. Biol. V. 385 984 2009
PubMed-ID: 19014949  |  Reference-DOI: 10.1016/J.JMB.2008.10.084

(-) Compounds

Molecule 1 - 2,4-D INDUCIBLE GLUTATHIONE S-TRANSFERASE
    Chains: A, B
    EC Number: 2.5.1.18
    Organism Common: SOYBEAN
    Organism Scientific: GLYCINE MAX
    Organism Taxid: 3847
    Synonym: GLUTATHIONE-S-TRANSFERASE, GSTA

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
14NM2Ligand/Ion4-NITROPHENYL METHANETHIOL
2GOL2Ligand/IonGLYCEROL
3GTB2Ligand/IonS-(P-NITROBENZYL)GLUTATHIONE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:13 , PHE A:15 , LEU A:37 , LYS A:40 , LYS A:53 , ILE A:54 , PRO A:55 , GLU A:66 , SER A:67 , TYR A:107 , ARG A:111 , LEU A:212 , LYS A:215 , LEU A:216 , HOH A:2080 , HOH A:2220 , HOH A:2221 , HOH A:2223 , HOH A:2224BINDING SITE FOR RESIDUE GTB A1220
2AC2SOFTWARESER B:13 , PHE B:15 , LEU B:37 , LYS B:40 , LYS B:53 , ILE B:54 , PRO B:55 , GLU B:66 , SER B:67 , TYR B:107 , LEU B:212 , LYS B:215 , LEU B:216 , HOH B:2081 , HOH B:2095 , HOH B:2142 , HOH B:2203 , HOH B:2204 , HOH B:2207 , HOH B:2208BINDING SITE FOR RESIDUE GTB B1220
3AC3SOFTWARETRP A:11 , ARG A:20 , TYR A:32 , LYS A:197 , SER A:198 , LEU A:199 , PRO A:200BINDING SITE FOR RESIDUE 4NM A1221
4AC4SOFTWARETRP B:11 , ARG B:20 , TYR B:30 , TYR B:32 , LYS B:197 , SER B:198 , LEU B:199 , PRO B:200 , HOH B:2009BINDING SITE FOR RESIDUE 4NM B1221
5AC5SOFTWAREASP A:3 , VAL A:77 , TRP A:78 , ASP A:80 , HOH A:2226 , HOH A:2227BINDING SITE FOR RESIDUE GOL A1222
6AC6SOFTWAREVAL B:77 , ASN B:79 , ASP B:80 , HOH B:2107 , HOH B:2210 , HOH B:2211BINDING SITE FOR RESIDUE GOL B1222

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VO4)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ile A:54 -Pro A:55
2Ile A:218 -Glu A:219
3Ile B:54 -Pro B:55
4Ile B:218 -Glu B:219

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VO4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VO4)

(-) Exons   (0, 0)

(no "Exon" information available for 2VO4)

(-) 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:219
 aligned with O49235_SOYBN | O49235 from UniProtKB/TrEMBL  Length:219

    Alignment length:219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         
         O49235_SOYBN     1 MSDEVVLLDFWPSPFGMRVRIALAEKGIKYEYKEEDLRNKSPLLLQMNPVHKKIPVLIHNGKPICESLIAVQYIEEVWNDRNPLLPSDPYQRAQTRFWADYVDKKIYDLGRKIWTSKGEEKEAAKKEFIEALKLLEEQLGDKTYFGGDNLGFVDIALVPFYTWFKAYETFGTLNIESECPKFIAWAKRCLQKESVAKSLPDQQKVYEFIMDLRKKLGIE 219
               SCOP domains d2vo4a1 A:1-83 automated matches                                                   d2vo4a2 A:84-219 automated matches                                                                                                       SCOP domains
               CATH domains 2vo4A01 A:1-87 Glutaredoxin                                                            2vo4A02 A:88-219  [code=1.20.1050.10, no name defined]                                                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee...hhhhhhhhhhhhhh....eeee......hhhhhhhh.......eeee..eeeehhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vo4 A   1 MQDEVVLLDFWPSPFGMRVRIALAEKGIKYEYKEEDLRNKSPLLLQMNPVHKKIPVLIHNGKPICESLIAVQYIEEVWNDRNPLLPSDPYQRAQTRFWADYVDKKIYDLGRKIWTSKGEEKEAAKKEFIEALKLLEEQLGDKTYFGGDNLGFVDIALVPFYTWFKAYETFGTLNIESECPKFIAWAKRCLQKESVAKSLPDQQKVYEFIMDLRKKLGIE 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         


Chain B from PDB  Type:PROTEIN  Length:219
 aligned with O49235_SOYBN | O49235 from UniProtKB/TrEMBL  Length:219

    Alignment length:219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210         
         O49235_SOYBN     1 MSDEVVLLDFWPSPFGMRVRIALAEKGIKYEYKEEDLRNKSPLLLQMNPVHKKIPVLIHNGKPICESLIAVQYIEEVWNDRNPLLPSDPYQRAQTRFWADYVDKKIYDLGRKIWTSKGEEKEAAKKEFIEALKLLEEQLGDKTYFGGDNLGFVDIALVPFYTWFKAYETFGTLNIESECPKFIAWAKRCLQKESVAKSLPDQQKVYEFIMDLRKKLGIE 219
               SCOP domains d2vo4b1 B:1-83 automated matches                                                   d2vo4b2 B:84-219 automated matches                                                                                                       SCOP domains
               CATH domains 2vo4B01 B:1-87 Glutaredoxin                                                            2vo4B02 B:88-219  [code=1.20.1050.10, no name defined]                                                                               CATH domains
           Pfam domains (1) ------GST_N_3-2vo4B03 B:7-82                                                      --------------GST_C-2vo4B01 B:97-193                                                                           -------------------------- Pfam domains (1)
           Pfam domains (2) ------GST_N_3-2vo4B04 B:7-82                                                      --------------GST_C-2vo4B02 B:97-193                                                                           -------------------------- Pfam domains (2)
         Sec.struct. author ....eeeee...hhhhhhhhhhhhhh....eeee......hhhhhhhh.......eeee..eeeehhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vo4 B   1 MQDEVVLLDFWPSPFGMRVRIALAEKGIKYEYKEEDLRNKSPLLLQMNPVHKKIPVLIHNGKPICESLIAVQYIEEVWNDRNPLLPSDPYQRAQTRFWADYVDKKIYDLGRKIWTSKGEEKEAAKKEFIEALKLLEEQLGDKTYFGGDNLGFVDIALVPFYTWFKAYETFGTLNIESECPKFIAWAKRCLQKESVAKSLPDQQKVYEFIMDLRKKLGIE 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   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  (2, 4)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: GST_C (118)
(-)
Clan: Thioredoxin (367)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (O49235_SOYBN | O49235)
molecular function
    GO:0004364    glutathione transferase activity    Catalysis of the reaction: R-X + glutathione = H-X + R-S-glutathione. R may be an aliphatic, aromatic or heterocyclic group; X may be a sulfate, nitrile or halide group.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.

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 Related Entries

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

UniProtKB/Swiss-Prot
        O49235_SOYBN | O49235: 5agy
UniProtKB/TrEMBL
        O49235_SOYBN | O49235: 4top

(-) Related Entries Specified in the PDB File

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