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(-) Description

Title :  HOLO STRUCTURE OF MALEYL PYRUVATE ISOMERASE, A BACTERIAL GLUTATHIONE-S-TRANSFERASE IN ZETA CLASS
 
Authors :  D. K. Shoemark, N. Y Zhou, P. A. Williams, A. T. Hadfield
Date :  04 Sep 08  (Deposition) - 16 Sep 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Glutathione-S-Transferase, Gst, Plasmid, Pyruvate, Bacterial, Isomerase, Biodegradation, Maleyl Pyruvate, Fumaryl Pyruvate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Marsh, D. K. Shoemark, A. Jacob, C. Robinson, B. Cahill, N. Y. Zhou, P. A. Williams, A. T. Hadfield
Structure Of Bacterial Glutathione-S-Transferase Maleyl Pyruvate Isomerase And Implications For Mechanism Of Isomerisation.
J. Mol. Biol. V. 384 165 2008
PubMed-ID: 18824004  |  Reference-DOI: 10.1016/J.JMB.2008.09.028
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MALEYLPYRUVATE ISOMERASE
    Chains: A, B
    EC Number: 5.2.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: ROSETTA
    Expression System Taxid: 562
    Expression System Vector: PET28A
    Organism Scientific: RALSTONIA SP. U2
    Organism Taxid: 70356
    Other Details: VENEZUALAN OIL FIELDS
    Synonym: MALEYL PYRUVATE ISOMERASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

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

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:9 , GLY A:10 , THR A:11 , ARG A:14 , HIS A:38 , LEU A:51 , VAL A:52 , GLN A:64 , SER A:65 , PRO A:66 , HIS A:104 , ASN A:108 , ARG A:109 , ARG A:110 , HOH A:2230 , HOH A:2231 , HOH A:2232 , HOH A:2233 , HOH A:2234 , CYS B:101 , ASP B:102BINDING SITE FOR RESIDUE GSH A1213
2AC2SOFTWAREASP A:102 , HOH A:2118 , SER B:9 , GLY B:10 , THR B:11 , ARG B:14 , HIS B:38 , LEU B:51 , VAL B:52 , PRO B:53 , GLN B:64 , SER B:65 , PRO B:66 , HIS B:104 , ASN B:108 , ARG B:109 , ARG B:110 , HOH B:2095 , HOH B:2199 , HOH B:2200 , HOH B:2201BINDING SITE FOR RESIDUE GSH B1213

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2JL4)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Val A:52 -Pro A:53
2Thr A:78 -Pro A:79
3Val B:52 -Pro B:53
4Thr B:78 -Pro B:79

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2JL4)

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GST_NTERPS50404 Soluble glutathione S-transferase N-terminal domain profile.NAGL_RALSP1-80
 		  2A:1-80
B:1-80
2GST_CTERPS50405 Soluble glutathione S-transferase C-terminal domain profile.NAGL_RALSP85-212
 		  2A:85-212
B:85-212

(-) Exons   (0, 0)

(no "Exon" information available for 2JL4)

(-) 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:212
 aligned with NAGL_RALSP | O86043 from UniProtKB/Swiss-Prot  Length:212

    Alignment length:212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210  
           NAGL_RALSP     1 MKLYNFWRSGTSHRLRIALNLKGVPYEYLAVHLGKEEHLKDAFKALNPQQLVPALDTGAQVLIQSPAIIEWLEEQYPTPALLPADADGRQRVRALAAIVGCDIHPINNRRILEYLRKTFGADEAAINAWCGTWISAGFDAYEALLAVDPKRGRYSFGDTPTLADCYLVPQVESARRFQVDLTPYPLIRAVDAACGELDAFRRAAPAAQPDSA 212
               SCOP domains d2jl4a1 A:1-79 automated matches                                               d2jl4a2 A:80-212 automated matches                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------2jl4A02 A:83-212  [code=1.20.1050.10, no name defined]                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...hhhhhhhhhhhhhh....eeee.....hhhhhhhhhh........eee....eeehhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhh......hhhhhhhhhhhh.hhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GST_NTER  PDB: A:1-80 UniProt: 1-80                                             ----GST_CTER  PDB: A:85-212 UniProt: 85-212                                                                                          PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jl4 A   1 MKLYNFWRSGTSHRLRIALNLKGVPYEYLAVHLGKEEHLKDAFKALNPQQLVPALDTGAQVLIQSPAIIEWLEEQYPTPALLPADADGRQRVRALAAIVGCDIHPINNRRILEYLRKTFGADEAAINAWCGTWISAGFDAYEALLAVDPKRGRYSFGDTPTLADCYLVPQVESARRFQVDLTPYPLIRAVDAACGELDAFRRAAPAAQPDSA 212
                                    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:212
 aligned with NAGL_RALSP | O86043 from UniProtKB/Swiss-Prot  Length:212

    Alignment length:212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210  
           NAGL_RALSP     1 MKLYNFWRSGTSHRLRIALNLKGVPYEYLAVHLGKEEHLKDAFKALNPQQLVPALDTGAQVLIQSPAIIEWLEEQYPTPALLPADADGRQRVRALAAIVGCDIHPINNRRILEYLRKTFGADEAAINAWCGTWISAGFDAYEALLAVDPKRGRYSFGDTPTLADCYLVPQVESARRFQVDLTPYPLIRAVDAACGELDAFRRAAPAAQPDSA 212
               SCOP domains d2jl4b1 B:1-79 automated matches                                               d2jl4b2 B:80-212 automated matches                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------2jl4B02 B:83-212  [code=1.20.1050.10, no name defined]                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...hhhhhhhhhhhhhh....eeee.....hhhhhhhhhh........eee....eeehhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhh......hhhhhhhhhhhh.hhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE GST_NTER  PDB: B:1-80 UniProt: 1-80                                             ----GST_CTER  PDB: B:85-212 UniProt: 85-212                                                                                          PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2jl4 B   1 MKLYNFWRSGTSHRLRIALNLKGVPYEYLAVHLGKEEHLKDAFKALNPQQLVPALDTGAQVLIQSPAIIEWLEEQYPTPALLPADADGRQRVRALAAIVGCDIHPINNRRILEYLRKTFGADEAAINAWCGTWISAGFDAYEALLAVDPKRGRYSFGDTPTLADCYLVPQVESARRFQVDLTPYPLIRAVDAACGELDAFRRAAPAAQPDSA 212
                                    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)
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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  (2, 4)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2JL4)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (NAGL_RALSP | O86043)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    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:0050077    maleylpyruvate isomerase activity    Catalysis of the reaction: 3-maleylpyruvate = 3-fumarylpyruvate.
biological process
    GO:0009072    aromatic amino acid family metabolic process    The chemical reactions and pathways involving aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
    GO:0019439    aromatic compound catabolic process    The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        NAGL_RALSP | O86043: 2v6k

(-) Related Entries Specified in the PDB File

2v6k STRUCTURE OF MALEYL PYRUVATE ISOMERASE, A BACTERIAL GLUTATHIONE-S-TRANSFERASE IN ZETA CLASS, IN COMPLEX WITH SUBSTRATE ANALOGUE DICARBOXYETHYL GLUTATHIONE