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(-) Description

Title :  CRYSTAL STRUCTURE OF BACTERIAL LIPASE FROM CHROMOBACTERIUM VISCOSUM ATCC 6918
 
Authors :  D. A. Lang, B. Hofmann, L. Haalck, H. -J. Hecht, F. Spener, R. D. Schmid, D. Schomburg
Date :  09 Jan 97  (Deposition) - 01 Apr 97  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Triacylglycerol-Hydrolase, X-Ray Crystallography, Pseudomonadaceae, Oxyanion, Cis-Peptide, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Lang, B. Hofmann, L. Haalck, H. J. Hecht, F. Spener, R. D. Schmid, D. Schomburg
Crystal Structure Of A Bacterial Lipase From Chromobacterium Viscosum Atcc 6918 Refined At 1. 6 Angstroms Resolution.
J. Mol. Biol. V. 259 704 1996
PubMed-ID: 8683577  |  Reference-DOI: 10.1006/JMBI.1996.0352
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRIACYLGLYCEROL HYDROLASE
    Atcc: 6918
    Chains: A
    EC Number: 3.1.1.3
    Organism Scientific: CHROMOBACTERIUM VISCOSUM
    Organism Taxid: 42739
    Other Details: CHAIN BREAK FROM V 220 - G 222

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:241 , ASP A:287 , GLN A:291 , LEU A:292 , VAL A:295 , HOH A:406 , HOH A:555BINDING SITE FOR RESIDUE CA A 320
2ACTUNKNOWNSER A:87 , HIS A:285 , ASP A:263THE CATALYTIC TRIAD OF THE ACTIVE CENTER CONSISTS OF THE RESIDUES SER 87 - HIS 285 - ASP 263, ALTHOUGH THEY ARE NOT EXPOSED TO THE SOLVENT, BUT A NARROW CHANNEL CONNECTS THEM WITH THE SURFACE.
3CAUNKNOWNASP A:241 , ASP A:287 , GLN A:291 , VAL A:295 , HOH A:460 , HOH A:555CA BINDING SITE.
4OXYUNKNOWNLEU A:17 , GLN A:88PERFORMED OXYANION, STABILIZED BY THE AMIDE NITROGEN ATOMS OF LEU 17 AND GLN 88, ALREADY PRESENT IN CLOSED CONFORMATION OF THE LIPASE.

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:190 -A:269

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gln A:291 -Leu A:292

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LIPASE_SERPS00120 Lipases, serine active site.LIP_BURGL120-129  1A:81-90

(-) Exons   (0, 0)

(no "Exon" information available for 1CVL)

(-) 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:316
 aligned with LIP_BURGL | Q05489 from UniProtKB/Swiss-Prot  Length:358

    Alignment length:319
                                    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       349         
            LIP_BURGL    40 ADTYAATRYPVILVHGLAGTDKFANVVDYWYGIQSDLQSHGAKVYVANLSGFQSDDGPNGRGEQLLAYVKQVLAATGATKVNLIGHSQGGLTSRYVAAVAPQLVASVTTIGTPHRGSEFADFVQDVLKTDPTGLSSTVIAAFVNVFGTLVSSSHNTDQDALAALRTLTTAQTATYNRNFPSAGLGAPGSCQTGAATETVGGSQHLLYSWGGTAIQPTSTVLGVTGATDTSTGTLDVANVTDPSTLALLATGAVMINRASGQNDGLVSRCSSLFGQVISTSYHWNHLDEINQLLGVRGANAEDPVAVIRTHVNRLKLQGV 358
               SCOP domains d1cvla_ A: Lipase                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1cvlA00 A:1-319  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeee.......ee...ee....hhhhhhh....eee..............hhhhhhhhhhhhhhhh....eeeeee..hhhhhhhhhhh....eeeeeee.......hhhhhhhhhh.........hhhhhhhhhhhhh......hhhhhhh......hhhhhhhhhh.................eeee..eeeeeeeeee..eee...---...eee........hhhh..hhhhhhhhhhhhhh...........hhhh...eeeeeee.....................hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------LIPASE_SER------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1cvl A   1 ADTYAATRYPVILVHGLAGTDKFANVVDYWYGIQSDLQSHGAKVYVANLSGFQSDDGPNGRGEQLLAYVKQVLAATGATKVNLIGHSQGGLTSRYVAAVAPQLVASVTTIGTPHRGSEFADFVQDVLKTDPTGLSSTVIAAFVNVFGTLVSSSHNTDQDALAALRTLTTAQTATYNRNFPSAGLGAPGSCQTGAATETVGGSQHLLYSWGGTAIQPTST---VTGATDTSTGTLDVANVTDPSTLALLATGAVMINRASGQNDGLVSRCSSLFGQVISTSYHWNHLDEINQLLGVRGANAEDPVAVIRTHVNRLKLQGV 319
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210        |-  |    230       240       250       260       270       280       290       300       310         
                                                                                                                                                                                                                                                    219 223
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (LIP_BURGL | Q05489)
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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0004806    triglyceride lipase activity    Catalysis of the reaction: triacylglycerol + H2O = diacylglycerol + a carboxylate.
biological process
    GO:0016042    lipid catabolic process    The chemical reactions and pathways resulting in the breakdown of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
    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.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LIP_BURGL | Q05489: 1qge 1tah 2es4

(-) Related Entries Specified in the PDB File

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