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(-) Description

Title :  STRUCTURE OF A CIRCULAR PERMUTATION ON LIPASE B FROM CANDIDA ANTARTICA WITH BOUND SUICIDE INHIBITOR
 
Authors :  J. R. Horton, Z. Qian, D. Jia, S. A. Lutz, X. Cheng
Date :  18 Jul 09  (Deposition) - 06 Oct 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.69
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Circular Permutation, Suicide Inhibition, Hydrolase, Cleavage On Pair Of Basic Residues, Disulfide Bond, Glycoprotein, Lipid Degradation, Zymogen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Qian, J. R. Horton, X. Cheng, S. Lutz
Structural Redesign Of Lipase B From Candida Antarctica By Circular Permutation And Incremental Truncation.
J. Mol. Biol. V. 393 191 2009
PubMed-ID: 19683009  |  Reference-DOI: 10.1016/J.JMB.2009.08.008

(-) Compounds

Molecule 1 - LIPASE B
    Chains: A
    EC Number: 3.1.1.3
    Engineered: YES
    Expression System: PICHIA PASTORIS
    Expression System Taxid: 4922
    Organism Common: YEAST
    Organism Scientific: CANDIDA ANTARCTICA
    Organism Taxid: 34362
    Synonym: CALB

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1MHH1Ligand/IonMETHYL HYDROGEN (R)-HEXYLPHOSPHONATE
2NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
3PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
1MHH2Ligand/IonMETHYL HYDROGEN (R)-HEXYLPHOSPHONATE
2NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
3PO42Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:228 , SER A:229 , LEU A:233BINDING SITE FOR RESIDUE NAG A 401
2AC2SOFTWAREPRO A:103 , PRO A:104 , ASN A:108 , HOH A:1181 , HOH A:1183 , HOH A:1224BINDING SITE FOR RESIDUE NAG A 402
3AC3SOFTWARELYS A:242 , ARG A:283 , SER A:284 , HOH A:953 , HOH A:1069BINDING SITE FOR RESIDUE PO4 A 403
4AC4SOFTWARETHR A:74 , SER A:139 , GLN A:140 , GLN A:191 , HIS A:258BINDING SITE FOR RESIDUE MHH A 900

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:11 -A:29
2A:56 -A:98
3A:250 -A:292

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Pro A:103 -Pro A:104
2Gln A:225 -Pro A:226

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3ICW)

(-) 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:291
 aligned with LIPB_PSEA2 | P41365 from UniProtKB/Swiss-Prot  Length:342

    Alignment length:299
                                5         6                                                                                                                                                                                                                                                                                            
                                |    -    |   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         
           LIPB_PSEA2     1 MKLLS---------LTGVAGVLATCVAATPLVKRLPSGSDPAFSQPKSVLDAGLTCQGASPSSVSKPILLVPGTGTTGPQSFDSNWIPLSTQLGYTPCWISPPPFMLNDTQVNTEYMVNAITALYAGSGNNKLPVLTWSQGGLVAQWGLTFFPSIRSKVDRLMAFAPDYKGTVLAGPLDALAVSAPSVWQQTTGSALTTALRNAGGLTQIVPTTNLYSATDEIVQPQVSNSPLDSSYLFNGKNVQAQAVCGPLFVIDHAGSLTSQFSYVVGRSALRSTTGQARSADYGITDCNPLPAND 290
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................hhhhh...ee..ee.............hhhhhhh.eee..........eeeee.....hhhhhhh.hhhhhhhhh..eeeee........hhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhhh..eeeeeee..........--------.hhhhhhh...hhhhhhhhhh........eeeee........................eeeehhhhhh.......hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3icw A   1 AAIVAGPKQNCEPDLMPYARPFAVGKRTCSGIVGLPSGSDPAFSQPKSVLDAGLTCQGASPSSVSKPILLVPGTGTTGPQSFDSNWIPLSAQLGYTPCWISPPPFMLNDTQVNTEYMVNAITTLYAGSGNNKLPVLTWSQGGLVAQWGLTFFPSIRSKVDRLMAFAPDYKGTVLA--------SAPSVWQQTTGSALTTALRNAGGLTQIVPTTNLYSATDEIVQPQVSNSPLDSSYLFNGKNVQAQAVCGPLFVIDHAGSLTSQFSYVVGRSALRSTTGQARSADYGITDCNPLPAND 299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170    |    -   |   190       200       210       220       230       240       250       260       270       280       290         
                                                                                                                                                                                                        175      184
   Legend:   → Mismatch (orange background)
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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 3ICW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (LIPB_PSEA2 | P41365)
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: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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LIPB_PSEA2 | P41365: 1lbs 1lbt 1tca 1tcb 1tcc 3icv 3w9b 4k5q 4k6g 4k6h 4k6k 4zv7 5a6v 5a71

(-) Related Entries Specified in the PDB File

3icv STRUCTURAL CONSEQUENCES OF A CIRCULAR PERMUTATION ON LIPASE B FROM CANDIDA ANTARTICA