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(-) Description

Title :  TUBER BORCHII PHOSPHOLIPASE A2
 
Authors :  D. Cavazzini, F. Meschi, R. Corsini, A. Bolchi, G. -L. Rossi, O. Einsle, S. Ottonello
Date :  18 May 12  (Deposition) - 12 Dec 12  (Release) - 30 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Cavazzini, F. Meschi, R. Corsini, A. Bolchi, G. -L. Rossi, O. Einsle S. Ottonello
Autoproteolytic Activation Of A Symbiosis-Regulated Truffle Phospholipase A2
J. Biol. Chem. V. 288 1533 2013
PubMed-ID: 23192346  |  Reference-DOI: 10.1074/JBC.M112.384156

(-) Compounds

Molecule 1 - PHOSPHOLIPASE A2 GROUP XIII
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: CODONPLUS-RIL
    Expression System Vector Type: PLASMID
    Fragment: ACTIVE FORM, RESIDUES 89-211
    Organism Common: WHITISH TRUFFLE
    Organism Scientific: TUBER BORCHII
    Organism Taxid: 42251

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2SCN1Ligand/IonTHIOCYANATE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2SCN-1Ligand/IonTHIOCYANATE ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2SCN1Ligand/IonTHIOCYANATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:111 , ALA A:112 , ASN A:115 , ASN A:117 , HOH A:2019 , ALA B:105BINDING SITE FOR RESIDUE ACT A1212
2AC2SOFTWAREALA A:105 , ALA B:112 , ASN B:117 , LEU B:186BINDING SITE FOR RESIDUE SCN B1212
3AC3SOFTWARESER B:92 , PRO B:93 , VAL B:94 , SER B:95BINDING SITE FOR RESIDUE ACT B1213

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:128 -A:144
2A:180 -A:194
3B:128 -B:144
4B:180 -B:194

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Asn A:117 -Pro A:118
2Ser A:184 -Gly A:185
3Gly A:185 -Leu A:186
4Ser A:188 -Trp A:189
5Asn B:117 -Pro B:118

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4AUP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4AUP)

(-) Exons   (0, 0)

(no "Exon" information available for 4AUP)

(-) 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:120
 aligned with Q9P4F6_TUBBO | Q9P4F6 from UniProtKB/TrEMBL  Length:211

    Alignment length:120
                                   101       111       121       131       141       151       161       171       181       191       201       211
         Q9P4F6_TUBBO    92 SPVSDTDRLLYSTAMPAFLTAKRNKNPGNLDWSDDGCSKSPDRPAGFNFLDSCKRHDFGYRNYKKQHRFTEANRKRIDDNFKKDLYNECAKYSGLESWKGVACRKIANTYYDAVRTFGWL 211
               SCOP domains ------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhh.hhhhhhhhhhh..................hhhhh.hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 4aup A  92 SPVSDTDRLLYSTAMPAFLTAKRNKNPGNLDWSDDGCSKSPDRPAGFNFLDSCKRHDFGYRNYKKQHRFTEANRKRIDDNFKKDLYNECAKYSGLESWKGVACRKIANTYYDAVRTFGWL 211
                                   101       111       121       131       141       151       161       171       181       191       201       211


Chain B from PDB  Type:PROTEIN  Length:123
 aligned with Q9P4F6_TUBBO | Q9P4F6 from UniProtKB/TrEMBL  Length:211

    Alignment length:123
                                    98       108       118       128       138       148       158       168       178       188       198       208   
         Q9P4F6_TUBBO    89 AALSPVSDTDRLLYSTAMPAFLTAKRNKNPGNLDWSDDGCSKSPDRPAGFNFLDSCKRHDFGYRNYKKQHRFTEANRKRIDDNFKKDLYNECAKYSGLESWKGVACRKIANTYYDAVRTFGWL 211
               SCOP domains --------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhh.hhhhhhhhhhhh.................hhhhh.hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 4aup B  89 AALSPVSDTDRLLYSTAMPAFLTAKRNKNPGNLDWSDDGCSKSPDRPAGFNFLDSCKRHDFGYRNYKKQHRFTEANRKRIDDNFKKDLYNECAKYSGLESWKGVACRKIANTYYDAVRTFGWL 211
                                    98       108       118       128       138       148       158       168       178       188       198       208
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  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 4AUP)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4AUP)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4AUP)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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  4aup
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