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(-) Description

Title :  CRYSTAL STRUCTURE OF RABBIT LIVER CARBOXYLESTERASE IN COMPLEX WITH 4-PIPERIDINO-PIPERIDINE
 
Authors :  S. Bencharit, C. L. Morton, E. L. Howard-Williams, M. K. Danks, P. M. Pot M. R. Redinbo
Date :  09 Oct 01  (Deposition) - 01 May 02  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Esterase, Side Door, Camptothecin, Irinotecan (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Bencharit, C. L. Morton, E. L. Howard-Williams, M. K. Danks, P. M. Potter, M. R. Redinbo
Structural Insights Into Cpt-11 Activation By Mammalian Carboxylesterases.
Nat. Struct. Biol. V. 9 337 2002
PubMed-ID: 11967565  |  Reference-DOI: 10.1038/NSB790

(-) Compounds

Molecule 1 - LIVER CARBOXYLESTERASE
    ChainsA
    EC Number3.1.1.1
    EngineeredYES
    Expression SystemSPODOPTERA FRUGIPERDA
    Expression System Cell LineSF9
    Expression System CommonFALL ARMYWORM
    Expression System Taxid7108
    Expression System Vector TypeBACULOVIRUS
    OrganLIVER
    Organism CommonRABBIT
    Organism ScientificORYCTOLAGUS CUNICULUS
    Organism Taxid9986

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric/Biological Unit (3, 8)
No.NameCountTypeFull Name
14PN1Ligand/Ion4-PIPERIDINO-PIPERIDINE
2MAN3Ligand/IonALPHA-D-MANNOSE
3NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:79 , THR A:81 , NAG A:1080BINDING SITE FOR RESIDUE NAG A 1079
2AC2SOFTWARENAG A:1079 , HOH A:3093 , HOH A:3236BINDING SITE FOR RESIDUE NAG A 1080
3AC3SOFTWAREASN A:389 , GLU A:553 , NAG A:1390 , 4PN A:2001 , HOH A:3220BINDING SITE FOR RESIDUE NAG A 1389
4AC4SOFTWARENAG A:1389 , MAN A:1391 , MAN A:1393 , 4PN A:2001 , HOH A:3210 , HOH A:3215 , HOH A:3216 , HOH A:3220BINDING SITE FOR RESIDUE NAG A 1390
5AC5SOFTWARENAG A:1390 , MAN A:1392 , MAN A:1393 , HOH A:3210 , HOH A:3214 , HOH A:3225BINDING SITE FOR RESIDUE MAN A 1391
6AC6SOFTWAREGLU A:333 , MAN A:1391 , MAN A:1393 , HOH A:3226 , HOH A:3386BINDING SITE FOR RESIDUE MAN A 1392
7AC7SOFTWAREALA A:336 , NAG A:1390 , MAN A:1391 , MAN A:1392 , HOH A:3210 , HOH A:3214 , HOH A:3253BINDING SITE FOR RESIDUE MAN A 1393
8AC8SOFTWAREASN A:389 , TRP A:550 , NAG A:1389 , NAG A:1390 , HOH A:3354BINDING SITE FOR RESIDUE 4PN A 2001

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:87 -A:116
2A:273 -A:284

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1K4Y)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1K4Y)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CARBOXYLESTERASE_B_2PS00941 Carboxylesterases type-B signature 2.EST1_RABIT114-124  1A:114-124
2CARBOXYLESTERASE_B_1PS00122 Carboxylesterases type-B serine active site.EST1_RABIT208-223  1A:208-223

(-) Exons   (0, 0)

(no "Exon" information available for 1K4Y)

(-) 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:501
 aligned with EST1_RABIT | P12337 from UniProtKB/Swiss-Prot  Length:565

    Alignment length:534
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552    
           EST1_RABIT    23 PPVVDTVHGKVLGKFVSLEGFAQPVAVFLGVPFAKPPLGSLRFAPPQPAESWSHVKNTTSYPPMCSQDAVSGHMLSELFTNRKENIPLKFSEDCLYLNIYTPADLTKRGRLPVMVWIHGGGLMVGGASTYDGLALSAHENVVVVTIQYRLGIWGFFSTGDEHSRGNWGHLDQVAALRWVQDNIANFGGDPGSVTIFGESAGGQSVSILLLSPLTKNLFHRAISESGVALLSSLFRKNTKSLAEKIAIEAGCKTTTSAVMVHCLRQKTEEELMEVTLKMKFMALDLVGDPKENTAFLTTVIDGVLLPKAPAEILAEKKYNMLPYMVGINQQEFGWIIPMQMLGYPLSEGKLDQKTATELLWKSYPIVNVSKELTPVATEKYLGGTDDPVKKKDLFLDMLADLLFGVPSVNVARHHRDAGAPTYMYEYRYRPSFSSDMRPKTVIGDHGDEIFSVLGAPFLKEGATEEEIKLSKMVMKYWANFARNGNPNGEGLPQWPAYDYKEGYLQIGATTQAAQKLKDKEVAFWTELWAKEAAR 556
               SCOP domains d1k4ya_ A: Mammalian carboxylesterase (liver carboxylesterase I)                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 1k4yA00 A:23-556  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 CATH domains
               Pfam domains COesterase-1k4yA01 A:23-546                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 ---------- Pfam domains
         Sec.struct. author ..ee......ee.eee........eeeeeeee.....hhhhh.............ee......ee..hhhhhhhhhhhhh.........ee....eeeeee.........eeeeeee..............hhhhhhhhh.eeeee...hhhhhhh.........hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeehhhhhhhhhhhhhhhhh....eeeee.............hhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh............................hhhhhhhhh......eeeeee....----------------....hhhhhhhhhhhhhhh....hhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhh....eeeeee.-----------------.hhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhh..................eeee....eee...hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------CARBOXYLEST-----------------------------------------------------------------------------------CARBOXYLESTERASE--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1k4y A  23 PPVVDTVHGKVLGKFVSLEGFAQPVAVFLGVPFAKPPLGSLRFAPPQPAESWSHVKNTTSYPPMCSQDAVSGHMLSELFTNRKENIPLKFSEDCLYLNIYTPADLTKRGRLPVMVWIHGGGLMVGGASTYDGLALSAHENVVVVTIQYRLGIWGFFSTGDEHSRGNWGHLDQVAALRWVQDNIANFGGDPGSVTIFGESAGGQSVSILLLSPLTKNLFHRAISESGVALLSSLFRKNTKSLAEKIAIEAGCKTTTSAVMVHCLRQKTEEELMEVTLKMKFMALDLVGDPKENTAFLTTVIDGVLLPKAPAEILAEKKYNMLPYMVGINQQEF----------------KLDQKTATELLWKSYPIVNVSKELTPVATEKYLGGTDDPVKKKDLFLDMLADLLFGVPSVNVARHHRDAGAPTYMYEYR-----------------HGDEIFSVLGAPFLKEGATEEEIKLSKMVMKYWANFARNGNPNGEGLPQWPAYDYKEGYLQIGATTQAAQKLKDKEVAFWTELWAKEAAR 556
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352 |       -       372       382       392       402       412       422       432       442      |  -         -    |  472       482       492       502       512       522       532       542       552    
                                                                                                                                                                                                                                                                                                                                                                     354              371                                                                           449               467                                                                                         

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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  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (EST1_RABIT | P12337)
molecular function
    GO:0052689    carboxylic ester hydrolase activity    Catalysis of the hydrolysis of a carboxylic ester bond.
    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.
cellular component
    GO:0005783    endoplasmic reticulum    The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
    GO:0005788    endoplasmic reticulum lumen    The volume enclosed by the membranes of the endoplasmic reticulum.

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