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(-) Description

Title :  E. COLI GSP AMIDASE C59A COMPLEXED WITH GSP
 
Authors :  C. -H. Pai, T. -P. Ko, B. -Y. Chiang, C. -H. Lin, A. H. -J. Wang
Date :  04 Jun 09  (Deposition) - 19 May 10  (Release) - 07 Dec 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Gsp Amidase, Atp-Binding, Hydrolase, Ligase, Multifunctional Enzyme, Nucleotide-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. -H. Pai, H. -J. Wu, C. -H. Lin, A. H. -J. Wang
Structure And Mechanism Of Escherichia Coli Glutathionylspermidine Amidase Belonging To The Family Of Cysteine; Histidine-Dependent Amidohydrolases/Peptidases
Protein Sci. V. 20 557 2011
PubMed-ID: 21226054  |  Reference-DOI: 10.1002/PRO.589

(-) Compounds

Molecule 1 - BIFUNCTIONAL GLUTATHIONYLSPERMIDINE SYNTHETASE/AMIDASE
    ChainsA
    EC Number6.3.1.8, 3.5.1.78
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28A
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentRESIDUES 1-197
    GeneGSP, B2988, JW2956
    MutationYES
    Organism ScientificESCHERICHIA COLI
    Organism Taxid83333
    StrainK12

 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  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1TS51Ligand/IonGLUTATHIONYLSPERMIDINE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1TS51Ligand/IonGLUTATHIONYLSPERMIDINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1TS52Ligand/IonGLUTATHIONYLSPERMIDINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:54 , GLN A:58 , ALA A:59 , VAL A:60 , ARG A:64 , ASP A:77 , VAL A:78 , GLY A:79 , MET A:80 , ALA A:81 , PHE A:126 , THR A:129 , GLY A:130 , HIS A:131 , ASN A:149 , HOH A:3018 , HOH A:3080 , HOH A:3081BINDING SITE FOR RESIDUE TS5 A 198

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3A2Y)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Lys A:56 -Trp A:57

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3A2Y)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CHAPPS50911 CHAP domain profile.GSP_ECOLI34-176  1A:34-176
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CHAPPS50911 CHAP domain profile.GSP_ECOLI34-176  1A:34-176
Biological Unit 2 (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CHAPPS50911 CHAP domain profile.GSP_ECOLI34-176  2A:34-176

(-) Exons   (0, 0)

(no "Exon" information available for 3A2Y)

(-) 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:185
 aligned with GSP_ECOLI | P0AES0 from UniProtKB/Swiss-Prot  Length:619

    Alignment length:185
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188     
            GSP_ECOLI     9 DAPFGTLLGYAPGGVAIYSSDYSSLDPQEYEDDAVFRSYIDDEYMGHKWQCVEFARRFLFLNYGVVFTDVGMAWEIFSLRFLREVVNDNILPLQAFPNGSPRAPVAGALLIWDKGGEFKDTGHVAIITQLHGNKVRIAEQNVIHSPLPQGQQWTRELEMVVENGCYTLKDTFDDTTILGWMIQTE 193
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee...eeee.......hhhhhhhh...eeee..eeeee..hhhhhhhhhhhhhhhee.....hhhhhhhh.eeee.....eeeeeeee...........eeeee.hhhhh...eeeeeeee...eeeee................eeeeeeee..eeeee......eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------CHAP  PDB: A:34-176 UniProt: 34-176                                                                                                            ----------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3a2y A   9 DAPFGTLLGYAPGGVAIYSSDYSSLDPQEYEDDAVFRSYIDDEYMGHKWQAVEFARRFLFLNYGVVFTDVGMAWEIFSLRFLREVVNDNILPLQAFPNGSPRAPVAGALLIWDKGGEFKDTGHVAIITQLHGNKVRIAEQNVIHSPLPQGQQWTRELEMVVENGCYTLKDTFDDTTILGWMIQTE 193
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188     

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

(no "SCOP Domain" information available for 3A2Y)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3A2Y)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3A2Y)

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)
Chain A   (GSP_ECOLI | P0AES0)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    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:0008884    glutathionylspermidine amidase activity    Catalysis of the reaction: N1-(gamma-L-glutamyl-L-cysteinyl-glycyl)-spermidine + H2O = gamma-L-glutamyl-L-cysteinyl-glycine + spermidine.
    GO:0008885    glutathionylspermidine synthase activity    Catalysis of the reaction: gamma-L-glutamyl-L-cysteinyl-glycine + spermidine + ATP = N1-(gamma-L-glutamyl-L-cysteinyl-glycyl)-spermidine + ADP + phosphate.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0006749    glutathione metabolic process    The chemical reactions and pathways involving glutathione, the tripeptide glutamylcysteinylglycine, which acts as a coenzyme for some enzymes and as an antioxidant in the protection of sulfhydryl groups in enzymes and other proteins; it has a specific role in the reduction of hydrogen peroxide (H2O2) and oxidized ascorbate, and it participates in the gamma-glutamyl cycle.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0008216    spermidine metabolic process    The chemical reactions and pathways involving spermidine, N-(3-aminopropyl)-1,4-diaminobutane.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        GSP_ECOLI | P0AES02io7 2io8 2io9 2ioa 2iob 3a2z 3a30 3o98

(-) Related Entries Specified in the PDB File

2iob MODEL FOR MOLECULAR REPLACEMENT
3a2z E. COLI GSP AMIDASE CYS59 SULFENIC ACID
3a30 E. COLI GSP AMIDASE CYS59 ACETATE MODIFICATION