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(-) Description

Title :  CRYSTAL STRUCTURE OF PSEUDOMONAS 7A GLUTAMINASE-ASPARAGINASE WITH THE INHIBITOR DON COVALENTLY BOUND IN THE ACTIVE SITE
 
Authors :  E. Ortlund, M. W. Lacount, K. Lewinski, L. Lebioda
Date :  03 Dec 99  (Deposition) - 24 Jan 00  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Pga, Glutaminase, Asparaginase, Don, 6-Diazo-5-Oxo-L-Norvaline, Glutaminase-Asparaginase, Suicide Inhibitor, Covalently Bound Inhibitor, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Ortlund, M. W. Lacount, K. Lewinski, L. Lebioda
Reactions Of Pseudomonas 7A Glutaminase-Asparaginase With Diazo Analogues Of Glutamine And Asparagine Result In Unexpected Covalent Inhibitions And Suggests An Unusual Catalytic Triad Thr-Tyr-Glu.
Biochemistry V. 39 1199 2000
PubMed-ID: 10684596  |  Reference-DOI: 10.1021/BI991797D

(-) Compounds

Molecule 1 - GLUTAMINASE-ASPARAGINASE
    Chains: A, B
    EC Number: 3.5.1.38
    Organism Scientific: PSEUDOMONAS SP.
    Organism Taxid: 65406
    Strain: 7A

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1DO22Ligand/Ion5,5-DIHYDROXY-6-OXO-L-NORLEUCINE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1DO24Ligand/Ion5,5-DIHYDROXY-6-OXO-L-NORLEUCINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:1019 , THR A:1020 , TYR A:1034 , ALA A:1066 , SER A:1067 , GLU A:1068 , GLY A:1099 , THR A:1100 , ASP A:1101 , SER A:1125 , GLU B:3294BINDING SITE FOR RESIDUE DO2 A 4000
2AC2SOFTWARESER A:1258 , GLU A:1294 , GLY B:3019 , THR B:3020 , TYR B:3034 , ALA B:3066 , SER B:3067 , GLU B:3068 , GLY B:3099 , THR B:3100 , ASP B:3101 , SER B:3125BINDING SITE FOR RESIDUE DO2 B 4001

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1DJP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (3, 6)

Asymmetric Unit (3, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ASN_GLN_ASE_3PS51732 Asparaginase / glutaminase domain profile.ASPQ_PSES710-337
 		  2A:1010-1337
B:3010-3337
2ASN_GLN_ASE_1PS00144 Asparaginase / glutaminase active site signature 1.ASPQ_PSES714-22
 		  2A:1014-1022
B:3014-3022
3ASN_GLN_ASE_2PS00917 Asparaginase / glutaminase active site signature 2.ASPQ_PSES793-103
 		  2A:1093-1103
B:3093-3103
Biological Unit 1 (3, 12)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ASN_GLN_ASE_3PS51732 Asparaginase / glutaminase domain profile.ASPQ_PSES710-337
 		  4A:1010-1337
B:3010-3337
2ASN_GLN_ASE_1PS00144 Asparaginase / glutaminase active site signature 1.ASPQ_PSES714-22
 		  4A:1014-1022
B:3014-3022
3ASN_GLN_ASE_2PS00917 Asparaginase / glutaminase active site signature 2.ASPQ_PSES793-103
 		  4A:1093-1103
B:3093-3103

(-) Exons   (0, 0)

(no "Exon" information available for 1DJP)

(-) 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:330
 aligned with ASPQ_PSES7 | P10182 from UniProtKB/Swiss-Prot  Length:337

    Alignment length:330
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337
          ASPQ_PSES7      8 KLANVVILATGGTIAGAGASAANSATYQAAKVGVDKLIAGVPELADLANVRGEQVMQIASESITNDDLLKLGKRVAELADSNDVDGIVITHGTDTLEETAYFLDLTLNTDKPIVVVGSMRPGTAMSADGMLNLYNAVAVASNKDSRGKGVLVTMNDEIQSGRDVSKSINIKTEAFKSAWGPLGMVVEGKSYWFRLPAKRHTVNSEFDIKQISSLPQVDIAYSYGNVTDTAYKALAQNGAKALIHAGTGNGSVSSRLTPALQTLRKTGTQIIRSSHVNQGGFVLRNAEQPDDKNDWVVAHDLNPEKARILVELAMVKTQDSKELQRIFWEY  337
               SCOP domains d1djpa_ A: Glutaminase-asparaginase                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains -1djpA01 A:1009-1222  [code=3.40.50.1170, no name defined]                                                                                                                                                             1djpA02 A:1223-1336  [code=3.40.50.40, no name defined]                                                           - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeee.....................hhhhhhhhh.hhhhhheeeeeeeeeehhhhhhhhhhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhh.....eeee...........hhhhhhhhhhhhhhhhhhh....ee....eeee....ee........ee......eeee..eeee.......hhhhh..hhhhh.....eeeee......hhhhhhhhhh...eeeeee.........hhhhhhhhhhh..eeeeee..............hhhhhh.ee....hhhhhhhhhhhhh....hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) --ASN_GLN_ASE_3  PDB: A:1010-1337 UniProt: 10-337                                                                                                                                                                                                                                                                                          PROSITE (1)
                PROSITE (2) ------ASN_GLN_A----------------------------------------------------------------------ASN_GLN_ASE------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1djp A 1008 KLANVVILATGGTIAGAGASAANSATYQAAKVGVDKLIAGVPELADLANVRGEQVMQIASESITNDDLLKLGKRVAELADSNDVDGIVITHGTDTLEETAYFLNLVQKTDKPIVVVGSMRPGTAMSADGMLNLYNAVAVASNKDSRGKGVLVTMNDEIQSGRDVSKSINIKTEAFKSAWGPLGMVVEGKSYWFRLPAKRHTVNSEFDIKQISSLPQVDIAYSYGNVTDTAYKALAQNGAKALIHAGTGNGSVSSRVVPALQQLRKNGTQIIRSSHVNQGGFVLRNAEQPDDKNDWVVAHDLNPEKARILAMVAMTKTQDSKELQRIFWEY 1337
                                  1017      1027      1037      1047      1057      1067      1077      1087      1097      1107      1117      1127      1137      1147      1157      1167      1177      1187      1197      1207      1217      1227      1237      1247      1257      1267      1277      1287      1297      1307      1317      1327      1337


Chain B from PDB  Type:PROTEIN  Length:330
 aligned with ASPQ_PSES7 | P10182 from UniProtKB/Swiss-Prot  Length:337

    Alignment length:330
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337
          ASPQ_PSES7      8 KLANVVILATGGTIAGAGASAANSATYQAAKVGVDKLIAGVPELADLANVRGEQVMQIASESITNDDLLKLGKRVAELADSNDVDGIVITHGTDTLEETAYFLDLTLNTDKPIVVVGSMRPGTAMSADGMLNLYNAVAVASNKDSRGKGVLVTMNDEIQSGRDVSKSINIKTEAFKSAWGPLGMVVEGKSYWFRLPAKRHTVNSEFDIKQISSLPQVDIAYSYGNVTDTAYKALAQNGAKALIHAGTGNGSVSSRLTPALQTLRKTGTQIIRSSHVNQGGFVLRNAEQPDDKNDWVVAHDLNPEKARILVELAMVKTQDSKELQRIFWEY  337
               SCOP domains d1djpb_ B: Glutaminase-asparaginase                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains -1djpB01 B:3009-3222  [code=3.40.50.1170, no name defined]                                                                                                                                                             1djpB02 B:3223-3336  [code=3.40.50.40, no name defined]                                                           - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeeeeee.hhhh................hhhhhhhhhhhhh..eeeeeeeeeeehhhhhhhhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhh.....eeee...........hhhhhhhhhhhhhhhhhhh...eee....eeee....ee........ee......eeee..eeee.......hhhhh............eeeee......hhhhhhhhhh...eeeeee.........hhhhhhhhhhh..eeeeee..............hhhhhh.ee....hhhhhhhhhhhhh....hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) --ASN_GLN_ASE_3  PDB: B:3010-3337 UniProt: 10-337                                                                                                                                                                                                                                                                                          PROSITE (1)
                PROSITE (2) ------ASN_GLN_A----------------------------------------------------------------------ASN_GLN_ASE------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1djp B 3008 KLANVVILATGGTIAGAGASAANSATYQAAKVGVDKLIAGVPELADLANVRGEQVMQIASESITNDDLLKLGKRVAELADSNDVDGIVITHGTDTLEETAYFLNLVQKTDKPIVVVGSMRPGTAMSADGMLNLYNAVAVASNKDSRGKGVLVTMNDEIQSGRDVSKSINIKTEAFKSAWGPLGMVVEGKSYWFRLPAKRHTVNSEFDIKQISSLPQVDIAYSYGNVTDTAYKALAQNGAKALIHAGTGNGSVSSRVVPALQQLRKNGTQIIRSSHVNQGGFVLRNAEQPDDKNDWVVAHDLNPEKARILAMVAMTKTQDSKELQRIFWEY 3337
                                  3017      3027      3037      3047      3057      3067      3077      3087      3097      3107      3117      3127      3137      3147      3157      3167      3177      3187      3197      3207      3217      3227      3237      3247      3257      3267      3277      3287      3297      3307      3317      3327      3337
   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  (1, 2)

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

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (ASPQ_PSES7 | P10182)
molecular function
    GO:0004067    asparaginase activity    Catalysis of the reaction: L-asparagine + H2O = L-aspartate + NH3.
    GO:0050417    glutamin-(asparagin-)ase activity    Catalysis of the reaction: H2O + L-glutamine = NH3 + L-glutamate; and H2O + L-asparagine = NH3 + L-aspartate.
    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.
biological process
    GO:0006528    asparagine metabolic process    The chemical reactions and pathways involving asparagine, 2-amino-3-carbamoylpropanoic acid.
    GO:0006520    cellular amino acid metabolic process    The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells.
cellular component
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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 Related Entries

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

UniProtKB/Swiss-Prot
        ASPQ_PSES7 | P10182: 1djo 3pga 4pga

(-) Related Entries Specified in the PDB File

1djo
4pga NATIVE STRUCTURE WITH AMMONIUM SULFATE IONS INDUCING THE ACTIVE CONFORMATION