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(-) Description

Title :  STRUCTURE OF SPHINGOMONAD, GLUTATHIONE S-TRANSFERASE COMPLEXED WITH GLUTATHIONE
 
Authors :  T. Nishio, T. Watanabe, A. Patel, Y. Wang, P. C. K. Lau, P. Grochulski, Y. M. Cygler
Date :  24 May 00  (Deposition) - 21 Jun 00  (Release) - 21 Dec 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A,B,C,D  (1x)
Keywords :  Gst Complexed With Glutathione, Thioredoxin Superfamily Fold, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Nishio, T. Watanabe, A. Patel, Y. Wang, P. C. K. Lau, P. Grochulski, Y. Li, M. Cygler
Properties Of A Sphingomonad And Marine Bacterium Beta-Clas Glutathione S-Transferases And Crystal Structure Of The Former Complex With Glutathione
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - GLUTATHIONE S-TRANSFERASE
    Chains: A, B, C, D
    EC Number: 2.5.1.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: SPHINGOMONAS PAUCIMOBILIS
    Organism Taxid: 13689

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD
Biological Unit 3 (1x): ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1GSH4Ligand/IonGLUTATHIONE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1GSH2Ligand/IonGLUTATHIONE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1GSH2Ligand/IonGLUTATHIONE
Biological Unit 3 (1, 4)
No.NameCountTypeFull Name
1GSH4Ligand/IonGLUTATHIONE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:10 , LYS A:51 , VAL A:52 , GLU A:65 , ASN A:66 , HIS A:106 , HOH A:223 , HOH A:336 , HOH A:339 , SER B:103 , GLU B:104 , HOH B:213BINDING SITE FOR RESIDUE GSH A 210
2AC2SOFTWAREGLU A:104 , CYS B:10 , LEU B:32 , LYS B:51 , VAL B:52 , GLU B:65 , ASN B:66 , HIS B:106 , HOH B:212BINDING SITE FOR RESIDUE GSH B 210
3AC3SOFTWARECYS C:10 , LEU C:32 , LYS C:51 , VAL C:52 , GLU C:65 , ASN C:66 , PRO C:67 , HIS C:106 , HOH C:293 , GLU D:104 , HOH D:221BINDING SITE FOR RESIDUE GSH C 210
4AC4SOFTWAREHOH A:315 , SER C:103 , GLU C:104 , HOH C:298 , CYS D:10 , LEU D:32 , ARG D:35 , LYS D:51 , VAL D:52 , GLU D:65 , ASN D:66 , PRO D:67 , HIS D:106 , HOH D:220 , HOH D:236BINDING SITE FOR RESIDUE GSH D 210

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1F2E)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Val A:52 -Pro A:53
2Val B:52 -Pro B:53
3Val C:52 -Pro C:53
4Val D:52 -Pro D:53

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1F2E)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1F2E)

(-) Exons   (0, 0)

(no "Exon" information available for 1F2E)

(-) 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:201
 aligned with O33705_SPHPI | O33705 from UniProtKB/TrEMBL  Length:201

    Alignment length:201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 
         O33705_SPHPI     1 MKLFISPGACSLAPHIALRETGADFEAVKVDLAVRKTEAGEDFLTVNPSGKVPALTLDSGETLTENPAILLYIADQNPASGLAPAEGSLDRYRLLSRLSFLGSEFHKAFVPLFAPATSDEAKAAAAESVKNHLAALDKELAGRDHYAGNAFSVADIYLYVMLGWPAYVGIDMAAYPALGAYAGKIAQRPAVGAALKAEGLA 201
               SCOP domains d1f2ea2 A:1-80 Class beta GST                                                   d1f2ea1 A:81-201 Class beta GST                                                                                           SCOP domains
               CATH domains 1f2eA01 A:1-82,A:189-201 Glutaredoxin                                             1f2eA02 A:83-188  [code=1.20.1050.10, no name defined]                                                    1f2eA01       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.....hhhhhhhhhhhh...eeeeee....ee....hhhhhh......eee.....eeehhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1f2e A   1 MKLFISPGACSLAPHIALRETGADFEAVKVDLAVRKTEAGEDFLTVNPSGKVPALTLDSGETLTENPAILLYIADQNPASGLAPAEGSLDRYRLLSRLSFLGSEFHKAFVPLFAPATSDEAKAAAAESVKNHLAALDKELAGRDHYAGNAFSVADIYLYVMLGWPAYVGIDMAAYPALGAYAGKIAQRPAVGAALKAEGLA 201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 


Chain B from PDB  Type:PROTEIN  Length:201
 aligned with O33705_SPHPI | O33705 from UniProtKB/TrEMBL  Length:201

    Alignment length:201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 
         O33705_SPHPI     1 MKLFISPGACSLAPHIALRETGADFEAVKVDLAVRKTEAGEDFLTVNPSGKVPALTLDSGETLTENPAILLYIADQNPASGLAPAEGSLDRYRLLSRLSFLGSEFHKAFVPLFAPATSDEAKAAAAESVKNHLAALDKELAGRDHYAGNAFSVADIYLYVMLGWPAYVGIDMAAYPALGAYAGKIAQRPAVGAALKAEGLA 201
               SCOP domains d1f2eb2 B:1-80 Class beta GST                                                   d1f2eb1 B:81-201 Class beta GST                                                                                           SCOP domains
               CATH domains 1f2eB01 B:1-82,B:189-201 Glutaredoxin                                             1f2eB02 B:83-188  [code=1.20.1050.10, no name defined]                                                    1f2eB01       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.....hhhhhhhhhhhh...eeeeee....ee.....hhhh.......eee.....eeehhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1f2e B   1 MKLFISPGACSLAPHIALRETGADFEAVKVDLAVRKTEAGEDFLTVNPSGKVPALTLDSGETLTENPAILLYIADQNPASGLAPAEGSLDRYRLLSRLSFLGSEFHKAFVPLFAPATSDEAKAAAAESVKNHLAALDKELAGRDHYAGNAFSVADIYLYVMLGWPAYVGIDMAAYPALGAYAGKIAQRPAVGAALKAEGLA 201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 


Chain C from PDB  Type:PROTEIN  Length:201
 aligned with O33705_SPHPI | O33705 from UniProtKB/TrEMBL  Length:201

    Alignment length:201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 
         O33705_SPHPI     1 MKLFISPGACSLAPHIALRETGADFEAVKVDLAVRKTEAGEDFLTVNPSGKVPALTLDSGETLTENPAILLYIADQNPASGLAPAEGSLDRYRLLSRLSFLGSEFHKAFVPLFAPATSDEAKAAAAESVKNHLAALDKELAGRDHYAGNAFSVADIYLYVMLGWPAYVGIDMAAYPALGAYAGKIAQRPAVGAALKAEGLA 201
               SCOP domains d1f2ec2 C:1-80 Class beta GST                                                   d1f2ec1 C:81-201 Class beta GST                                                                                           SCOP domains
               CATH domains 1f2eC01 C:1-82,C:189-201 Glutaredoxin                                             1f2eC02 C:83-188  [code=1.20.1050.10, no name defined]                                                    1f2eC01       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.....hhhhhhhhhhhh...eeeeee....ee.....hhhh.......eee.....eeehhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1f2e C   1 MKLFISPGACSLAPHIALRETGADFEAVKVDLAVRKTEAGEDFLTVNPSGKVPALTLDSGETLTENPAILLYIADQNPASGLAPAEGSLDRYRLLSRLSFLGSEFHKAFVPLFAPATSDEAKAAAAESVKNHLAALDKELAGRDHYAGNAFSVADIYLYVMLGWPAYVGIDMAAYPALGAYAGKIAQRPAVGAALKAEGLA 201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 


Chain D from PDB  Type:PROTEIN  Length:201
 aligned with O33705_SPHPI | O33705 from UniProtKB/TrEMBL  Length:201

    Alignment length:201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 
         O33705_SPHPI     1 MKLFISPGACSLAPHIALRETGADFEAVKVDLAVRKTEAGEDFLTVNPSGKVPALTLDSGETLTENPAILLYIADQNPASGLAPAEGSLDRYRLLSRLSFLGSEFHKAFVPLFAPATSDEAKAAAAESVKNHLAALDKELAGRDHYAGNAFSVADIYLYVMLGWPAYVGIDMAAYPALGAYAGKIAQRPAVGAALKAEGLA 201
               SCOP domains d1f2ed2 D:1-80 Class beta GST                                                   d1f2ed1 D:81-201 Class beta GST                                                                                           SCOP domains
               CATH domains 1f2eD01 D:1-82,D:189-201 Glutaredoxin                                             1f2eD02 D:83-188  [code=1.20.1050.10, no name defined]                                                    1f2eD01       CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee.....hhhhhhhhhhh....eeeeee....ee.....hhhh.......eee.....eeehhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1f2e D   1 MKLFISPGACSLAPHIALRETGADFEAVKVDLAVRKTEAGEDFLTVNPSGKVPALTLDSGETLTENPAILLYIADQNPASGLAPAEGSLDRYRLLSRLSFLGSEFHKAFVPLFAPATSDEAKAAAAESVKNHLAALDKELAGRDHYAGNAFSVADIYLYVMLGWPAYVGIDMAAYPALGAYAGKIAQRPAVGAALKAEGLA 201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200
   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, 8)

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

(-) CATH Domains  (2, 8)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Architecture: 3-Layer(aba) Sandwich (12045)
(-)
Topology: Glutaredoxin (620)
(-)
Homologous Superfamily: Glutaredoxin (617)
(-)
Sphingomonas paucimobilis. Organism_taxid: 13689. (1)
1a1f2eA01A:1-82,A:189-201
1b1f2eB01B:1-82,B:189-201
1c1f2eC01C:1-82,C:189-201
1d1f2eD01D:1-82,D:189-201
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1F2E)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (O33705_SPHPI | O33705)
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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  2.5.1.18
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 Related Entries

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(-) Related Entries Specified in the PDB File

1pmt CONTAINS PROTEIN FROM PROTEUS MIRABILIS COMPLEXED WITH GLUTATHIONE