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(-) Description

Title :  STRUCTURE OF A CA+2 DEPENDENT PHOSPHATIDYLINOSITOL-SPECIFIC PHOSPHOLIPASE C (PI-PLC) ENZYME FROM STREPTOMYCES ANTIBIOTICUS
 
Authors :  M. R. Jackson, T. L. Selby
Date :  21 Apr 09  (Deposition) - 12 May 10  (Release) - 12 May 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.23
Chains :  Asym./Biol. Unit :  A
Keywords :  Pi-Plc, Ca2+-Dependent, Catalytic Tim Barrel, Disulfide-Linked Helix- Loop, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. R. Jackson, T. L. Selby
Crystal Structure Of A Ca2+-Dependent Pi-Plc
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PHOSPHATIDYLINOSITOL-SPECIFIC PHOSPHOLIPASE C1
    Chains: A
    EC Number: 3.1.4.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Strain: BL21(DE3) AND B834(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: STREPTOMYCES ANTIBIOTICUS
    Organism Taxid: 1890

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 32)

Asymmetric/Biological Unit (5, 32)
No.NameCountTypeFull Name
1ACE5Mod. Amino AcidACETYL GROUP
2ACT3Ligand/IonACETATE ION
3CL1Ligand/IonCHLORIDE ION
4EOH20Ligand/IonETHANOL
5GOL3Ligand/IonGLYCEROL

(-) Sites  (32, 32)

Asymmetric Unit (32, 32)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:27 , GLY A:29 , GLY A:178 , TRP A:179 , HOH A:636BINDING SITE FOR RESIDUE CL A 340
02AC2SOFTWAREARG A:246 , ALA A:248 , GOL A:364BINDING SITE FOR RESIDUE EOH A 341
03AC3SOFTWAREHOH A:454 , HOH A:755BINDING SITE FOR RESIDUE EOH A 342
04AC4SOFTWAREALA A:92 , GLU A:144 , ALA A:147 , HOH A:597 , HOH A:610 , HOH A:673 , HOH A:674BINDING SITE FOR RESIDUE EOH A 343
05AC5SOFTWAREARG A:112 , ARG A:150 , GLN A:151 , HOH A:388BINDING SITE FOR RESIDUE EOH A 344
06AC6SOFTWAREARG A:100BINDING SITE FOR RESIDUE EOH A 345
07AC7SOFTWAREALA A:67 , LEU A:68 , ASN A:135 , GLY A:138 , ARG A:140 , HOH A:462BINDING SITE FOR RESIDUE EOH A 346
08AC8SOFTWARETRP A:208 , HOH A:602 , HOH A:754BINDING SITE FOR RESIDUE EOH A 347
09AC9SOFTWAREASP A:262 , ASN A:290 , HOH A:708BINDING SITE FOR RESIDUE EOH A 348
10BC1SOFTWAREALA A:105 , GLY A:106 , SER A:109 , LYS A:152 , EOH A:355 , HOH A:539 , HOH A:560 , HOH A:582BINDING SITE FOR RESIDUE EOH A 349
11BC2SOFTWARESER A:93 , GLU A:94 , LYS A:225 , GLN A:228BINDING SITE FOR RESIDUE EOH A 350
12BC3SOFTWAREPRO A:119 , GLY A:120 , HOH A:479BINDING SITE FOR RESIDUE EOH A 351
13BC4SOFTWAREASP A:277 , THR A:278 , HIS A:280 , HOH A:443 , HOH A:486 , HOH A:691BINDING SITE FOR RESIDUE EOH A 352
14BC5SOFTWAREHIS A:216 , ACE A:367 , ACE A:368 , HOH A:481 , HOH A:681BINDING SITE FOR RESIDUE EOH A 353
15BC6SOFTWARELYS A:137 , GLY A:138 , GLY A:139 , HOH A:533BINDING SITE FOR RESIDUE EOH A 354
16BC7SOFTWAREALA A:105 , EOH A:349 , HOH A:494 , HOH A:501BINDING SITE FOR RESIDUE EOH A 355
17BC8SOFTWARETYR A:325 , PRO A:326 , HOH A:407 , HOH A:544BINDING SITE FOR RESIDUE EOH A 356
18BC9SOFTWAREASN A:66 , HIS A:167 , HOH A:503 , HOH A:687BINDING SITE FOR RESIDUE EOH A 357
19CC1SOFTWAREGLU A:60 , LYS A:127 , ILE A:194 , HIS A:236 , ASP A:260 , HOH A:438 , HOH A:548 , HOH A:747BINDING SITE FOR RESIDUE EOH A 358
20CC2SOFTWAREALA A:183 , ALA A:186 , HOH A:426 , HOH A:534BINDING SITE FOR RESIDUE EOH A 359
21CC3SOFTWAREGLY A:81 , HOH A:395BINDING SITE FOR RESIDUE EOH A 360
22CC4SOFTWAREHIS A:115 , ASP A:155 , HOH A:420 , HOH A:530 , HOH A:626BINDING SITE FOR RESIDUE ACT A 361
23CC5SOFTWAREASP A:262 , HOH A:522 , HOH A:557 , HOH A:658BINDING SITE FOR RESIDUE ACT A 362
24CC6SOFTWAREPRO A:293 , VAL A:294 , ILE A:295 , GLU A:304 , HOH A:477 , HOH A:490 , HOH A:613BINDING SITE FOR RESIDUE ACT A 363
25CC7SOFTWAREALA A:239 , PRO A:240 , ASP A:242 , PRO A:243 , GLU A:245 , ARG A:246 , ALA A:248 , EOH A:341 , HOH A:574 , HOH A:592 , HOH A:737BINDING SITE FOR RESIDUE GOL A 364
26CC8SOFTWAREGLN A:223 , GLY A:224 , LYS A:225 , HOH A:373BINDING SITE FOR RESIDUE GOL A 365
27CC9SOFTWAREARG A:70 , SER A:71 , GLY A:138 , GLY A:139 , ARG A:140 , HOH A:501 , HOH A:643BINDING SITE FOR RESIDUE GOL A 366
28DC1SOFTWARESER A:93 , ALA A:143 , GLU A:144 , EOH A:353 , ACE A:368BINDING SITE FOR RESIDUE ACE A 367
29DC2SOFTWAREALA A:136 , GLY A:141 , PRO A:142 , ALA A:143 , GLU A:144 , EOH A:353 , ACE A:367 , ACE A:370 , HOH A:489BINDING SITE FOR RESIDUE ACE A 368
30DC3SOFTWAREGLY A:241 , ASP A:242 , PRO A:250 , HOH A:571 , HOH A:580 , HOH A:592BINDING SITE FOR RESIDUE ACE A 369
31DC4SOFTWAREPRO A:142 , GLU A:212 , ACE A:368 , HOH A:396BINDING SITE FOR RESIDUE ACE A 370
32DC5SOFTWARELYS A:42 , ASN A:83 , ASP A:101 , ALA A:183 , ASP A:184 , HOH A:452 , HOH A:555 , HOH A:649BINDING SITE FOR RESIDUE ACE A 371

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3H4X)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Pro A:292 -Pro A:293

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3H4X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3H4X)

(-) Exons   (0, 0)

(no "Exon" information available for 3H4X)

(-) 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:320
 aligned with B3A043_STRAT | B3A043 from UniProtKB/TrEMBL  Length:344

    Alignment length:320
                                                                                                                                                                                                                                                                                                                                                    344     
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339    |    -
         B3A043_STRAT    30 ATTYGTSTSVGVHNAYEKEKYRYFADALDSGAALLELDLWSNALGRSWRVSHSNPLGNNSNCEGAANASELRTKSRDQDFAGCLSDMRAWHDAHPGHRPILLKIEMKDGFNAKGGRGPAEFDALIRQKLGDAVYGPGDLTGGHATADEAVRAGGWPSRADLAGKFLFELIPGTVEEKNPFDKLWTDVEYAGHLKDLAAQGKLAQSTAFPAVHGAAPGDPRERYADPALRPWFVVFDGDAPTYLNGSIDTSWYDTRHYLLIMTDAHNVPPVIDGTHPTEAEALARVRQLAAAHASFATADWYPLPSVLKTVVPRGA-----   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeee..........hhhhhhh....eeeeeee........ee................hhhhh.......hhhhhhhhhhhhhhhh.....eeeeeee....hhhhh.hhhhhhhhhhhhhhhhh.hhhhhhh...hhhhhhhhhh...hhhhh..eeeeeee..hhhhh.....hhhhhhhhhhhhhhhhhhhhhh..eeeee.....hhhhhh....hhhhh.eeeeehhhhh.....hhhhhhh..eeeeehhhhh.........hhhhhhhhhhhhhhh...eeee....hhhhhh.eee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3h4x A  25 ATTYGTSTSVGVHNAYEKEKYRYFADALDSGAALLELDLWSNALGRSWRVSHSNPLGNNSNCEGAANASELRTKSRDQDFAGCLSDMRAWHDAHPGHRPILLKIEMKDGFNAKGGRGPAEFDALIRQKLGDAVYGPGDLTGGHATADEAVRAGGWPSRADLAGKFLFELIPGTVEEKNPFDKLWTDVEYAGHLKDLAAQGKLAQSTAFPAVHGAAPGDPRERYADPALRPWFVVFDGDAATYLNGSIDTSWYDTRHYLLIMTDAHNVPPVIDGTHPTEAEALARVRQLAAAHASFATADWYPLPSVLKTVVPRGAxxxxx 371
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334    |||371
                                                                                                                                                                                                                                                                                                                                                    339|||||
                                                                                                                                                                                                                                                                                                                                                     367-ACE
                                                                                                                                                                                                                                                                                                                                                      368-ACE
                                                                                                                                                                                                                                                                                                                                                       369-ACE
                                                                                                                                                                                                                                                                                                                                                        370-ACE
                                                                                                                                                                                                                                                                                                                                                         371-ACE
   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  (0, 0)

(no "SCOP Domain" information available for 3H4X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3H4X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3H4X)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (B3A043_STRAT | B3A043)
molecular function
    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:0004435    phosphatidylinositol phospholipase C activity    Catalysis of the reaction: 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + H(2)O = 1,2-diacylglycerol + 1D-myo-inositol 1,4,5-trisphosphate + H(+).
    GO:0008081    phosphoric diester hydrolase activity    Catalysis of the hydrolysis of a phosphodiester to give a phosphomonoester and a free hydroxyl group.
biological process
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.

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  3h4x
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  B3A043_STRAT | B3A043
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  3.1.4.11
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 Related Entries

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

UniProtKB/TrEMBL
        B3A043_STRAT | B3A043: 3h4w

(-) Related Entries Specified in the PDB File

3h4w SAME PROTEIN WITH THE DISULFIDE REDUCED AND ALTERNATIVE POSITION OF GLU 60 SIDE CHAIN