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(-) Description

Title :  STRUCTURE OF THE N254Y/H258Y MUTANT OF THE PHOSPHATIDYLINOSITOL-SPECIFIC PHOSPHOLIPASE C FROM S. AUREUS BOUND TO DIC4PC
 
Authors :  R. I. Goldstein, J. Cheng, B. Stec, A. Gershenson, M. F. Roberts
Date :  05 Dec 12  (Deposition) - 10 Apr 13  (Release) - 23 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  A
Keywords :  Tim Barrel, Phospholipase, Dic4Pc Binding, Lyase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Cheng, R. Goldstein, A. Gershenson, B. Stec, M. F. Roberts
The Cation-Pi Box Is A Specific Phosphatidylcholine Membran Targeting Motif.
J. Biol. Chem. V. 288 14863 2013
PubMed-ID: 23576432  |  Reference-DOI: 10.1074/JBC.M113.466532

(-) Compounds

Molecule 1 - 1-PHOSPHATIDYLINOSITOL PHOSPHODIESTERASE
    Chains: A
    EC Number: 4.6.1.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: PLC, NWMN_0041
    Mutation: YES
    Organism Scientific: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS
    Organism Taxid: 426430
    Strain: NEWMAN
    Synonym: PHOSPHATIDYLINOSITOL DIACYLGLYCEROL-LYASE, PHOSPHATIDYLINOSITOL-SPECIFIC PHOSPHOLIPASE C, PI-PLC

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2XP53Ligand/Ion(4S,7R)-7-(HEPTANOYLOXY)-4-HYDROXY-N,N,N-TRIMETHYL-10-OXO-3,5,9-TRIOXA-4-PHOSPHAHEXADECAN-1-AMINIUM 4-OXIDE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:113 , ARG A:166 , TRP A:185 , XP5 A:503 , HOH A:679BINDING SITE FOR RESIDUE ACT A 501
2AC2SOFTWARESER A:257 , TYR A:258 , GLU A:262 , LYS A:265 , TRP A:287 , TYR A:290 , HOH A:812BINDING SITE FOR RESIDUE XP5 A 502
3AC3SOFTWARETHR A:36 , LEU A:37 , LYS A:38 , ASP A:39 , LYS A:42 , HIS A:86 , ACT A:501 , HOH A:686BINDING SITE FOR RESIDUE XP5 A 503
4AC4SOFTWARELEU A:37 , LYS A:38 , SER A:43 , VAL A:44 , LYS A:47 , SER A:251 , TYR A:282 , TYR A:285 , HOH A:618 , HOH A:774BINDING SITE FOR RESIDUE XP5 A 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4I9J)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4I9J)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4I9J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4I9J)

(-) Exons   (0, 0)

(no "Exon" information available for 4I9J)

(-) 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:302
                                                                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh....hhhhh.eeee.hhhhhhh....hhhhhh....hhhhhhhh...eeeeeeeeee..eeeeee..eeeeeehhhhhhhhhhhhhhh....eeeeeee..........hhhhhhhhhh..hhhhh...........hhhhhh..eeeee.......................eeeeeee....eeeeeee....hhhhhhhhhhhhhhhhhh.....eeeeee...........hhhhhhhhhhhhhhhhhhhhh.....eeee...........hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i9j A   2 DSLSKSPENWMSKLDDGKHLTEINIPGSHDSGSFTLKDPVKSVWAKTQDKDYLTQMKSGVRFFDIRGRASADNMISVHHGMVYLHHELGKFLDDAKYYLSAYPNETIVMSMKKDYDSDSKVTKTFEEIFREYYYNNPQYQNLFYTGSNANPTLKETKGKIVLFNRMGGTYIKSGYGADTSGIQWADNATFETKINNGSLNLKVQDEYKDYYDKKVEAVKNLLAKAKTDSNKDNVYVNFLSVASGGSAFNSTYYYASYINPEIAKTIKANGKARTGWLIVDYAGYTWPGYDDIVSEIIDSNKL 303
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301
   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  (0, 0)

(no "SCOP Domain" information available for 4I9J)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4I9J)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4I9J)

(-) Gene Ontology  (7, 7)

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
        PLC_STAAE | P45723: 3v16 3v18 3v1h 4f2b 4f2t 4f2u 4i8y 4i90 4i9m 4i9t 4rv3 4s3g

(-) Related Entries Specified in the PDB File

4i8y N254Y/H258Y MUTANT, UNLIGANDED
4i90 N254Y/H258Y MUTANT, BOUND TO CHOLINE
4i9m
4i9t