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(-) Description

Title :  X-RAY STRUCTURE OF PHOSPHOLIPASE A2 COMPLEXED WITH A SUBSTRATE-DERIVED INHIBITOR
 
Authors :  B. W. Dijkstra, M. M. G. M. Thunnissen, K. H. Kalk, J. Drenth
Date :  01 Sep 90  (Deposition) - 15 Oct 91  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase(Carboxylic Ester) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. M. Thunnissen, E. Ab, K. H. Kalk, J. Drenth, B. W. Dijkstra, O. P. Kuipers, R. Dijkman, G. H. De Haas, H. M. Verheij
X-Ray Structure Of Phospholipase A2 Complexed With A Substrate-Derived Inhibitor.
Nature V. 347 689 1990
PubMed-ID: 2215698  |  Reference-DOI: 10.1038/347689A0
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHOSPHOLIPASE A2
    Chains: A, B
    EC Number: 3.1.1.4
    Engineered: YES
    Organ: PANCREAS
    Organism Common: PIG
    Organism Scientific: SUS SCROFA
    Organism Taxid: 9823

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION
2DHG2Ligand/IonPHOSPHONIC ACID 2-DODECANOYLAMINO-HEXYL ESTER PROPYLESTER

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:28 , GLY A:30 , GLY A:32 , ASP A:49 , DHG A:126BINDING SITE FOR RESIDUE CA A 125
2AC2SOFTWARETYR B:28 , GLY B:30 , GLY B:32 , ASP B:49 , DHG B:127BINDING SITE FOR RESIDUE CA B 125
3AC3SOFTWAREGLU A:71 , SER A:72 , GLU A:92 , GLU B:71 , SER B:72 , GLU B:92BINDING SITE FOR RESIDUE CA B 126
4AC4SOFTWARELEU A:2 , PRO A:18 , PHE A:22 , TYR A:28 , GLY A:30 , TRP A:31 , GLY A:32 , HIS A:48 , ASP A:49 , TYR A:52 , TYR A:69 , PHE A:106 , CA A:125 , HOH A:191 , TRP B:31 , GLY B:32BINDING SITE FOR RESIDUE DHG A 126
5AC5SOFTWARETRP A:31 , GLY A:32 , HOH A:191 , LEU B:2 , ARG B:6 , PRO B:18 , TYR B:28 , GLY B:30 , TRP B:31 , GLY B:32 , CYS B:45 , HIS B:48 , ASP B:49 , TYR B:52 , ARG B:53 , TYR B:69 , PHE B:106 , CA B:125 , HOH B:129BINDING SITE FOR RESIDUE DHG B 127

(-) SS Bonds  (14, 14)

Asymmetric/Biological Unit
No.Residues
1A:11 -A:77
2A:27 -A:124
3A:29 -A:45
4A:44 -A:105
5A:51 -A:98
6A:61 -A:91
7A:84 -A:96
8B:11 -B:77
9B:27 -B:124
10B:29 -B:45
11B:44 -B:105
12B:51 -B:98
13B:61 -B:91
14B:84 -B:96

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5P2P)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5P2P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5P2P)

(-) Exons   (0, 0)

(no "Exon" information available for 5P2P)

(-) 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:119
                                                                                                                                                       
               SCOP domains d5p2pa_ A: Phospholipase A2                                                                                             SCOP domains
               CATH domains 5p2pA00 A:1-124 Phospholipase A2                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh...hhhhhhh...............hhhhhhhhhhhhhhhhhh.............eee....eee....hhhhhhhhhhhhhhhhhhhh...hhhh...hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 5p2p A   1 ALFQFRSMIKCAIPGSHPLMDFNNYGCYCGWGGSGTPVDELDRCCETHDNCYRDAKNLSGCYPYTESYSYSCSNTEITCNSKNNACEAFICNCDRNAAICFSKAPYNKEHKNLDTKKYC 124
                                    10        20        30        40        50        60||      75        85        95       105       115         
                                                                                       61|                                                         
                                                                                        67                                                         


Chain B from PDB  Type:PROTEIN  Length:119
                                                                                                                                                       
               SCOP domains d5p2pb_ B: Phospholipase A2                                                                                             SCOP domains
               CATH domains 5p2pB00 B:1-124 Phospholipase A2                                                                                        CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh...hhhhhhh...............hhhhhhhhhhhhhhhhhh.............eeee..eeee....hhhhhhhhhhhhhhhhhhhh...hhhh...hhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 5p2p B   1 ALFQFRSMIKCAIPGSHPLMDFNNYGCYCGWGGSGTPVDELDRCCETHDNCYRDAKNLSGCYPYTESYSYSCSNTEITCNSKNNACEAFICNCDRNAAICFSKAPYNKEHKNLDTKKYC 124
                                    10        20        30        40        50        60||      75        85        95       105       115         
                                                                                       61|                                                         
                                                                                        67
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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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5P2P)

(-) Gene Ontology  (28, 28)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        PA21B_PIG | P00592: 1fx9 1fxf 1hn4 1l8s 1p2p 1pir 1pis 1sfv 1sfw 1y6o 1y6p 2azy 2azz 2b00 2b01 2b03 2b04 2phi 3fvi 3fvj 3hsw 3l30 3o4m 3p2p 3qlm 4dbk 4g5i 4o1y 4p2p

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5P2P)