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(-) Description

Title :  THERMOSTABLE COCAINE ESTERASE WITH MUTATIONS L169K AND G173Q, BOUND TO DTT ADDUCT
 
Authors :  J. J. G. Tesmer, M. R. Nance
Date :  20 Jul 09  (Deposition) - 02 Mar 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Alpha/Beta Hydrolase, Esterase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. L. Brim, M. R. Nance, D. W. Youngstrom, D. Narasimhan, C. G. Zhan, J. J. Tesmer, R. K. Sunahara, J. H. Woods
A Thermally Stable Form Of Bacterial Cocaine Esterase: A Potential Therapeutic Agent For Treatment Of Cocaine Abuse.
Mol. Pharmacol. V. 77 593 2010
PubMed-ID: 20086035  |  Reference-DOI: 10.1124/MOL.109.060806

(-) Compounds

Molecule 1 - COCAINE ESTERASE
    Chains: A
    EC Number: 3.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-22 (B) +
    Expression System Strain: BL-21 GOLD
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: COCE
    Mutation: YES
    Organism Scientific: RHODOCOCCUS SP.
    Organism Taxid: 51612
    Strain: MB1

 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, 12)

Asymmetric Unit (3, 12)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION
2DBC1Ligand/Ion(4S,5S)-4,5-BIS(MERCAPTOMETHYL)-1,3-DIOXOLAN-2-OL
3GOL8Ligand/IonGLYCEROL
Biological Unit 1 (2, 18)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2DBC2Ligand/Ion(4S,5S)-4,5-BIS(MERCAPTOMETHYL)-1,3-DIOXOLAN-2-OL
3GOL16Ligand/IonGLYCEROL

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:298 , ARG A:472BINDING SITE FOR RESIDUE CL A 588
02AC2SOFTWARETYR A:44 , SER A:117 , TYR A:118 , TRP A:166 , HIS A:287 , GOL A:593 , HOH A:853BINDING SITE FOR RESIDUE DBC A 589
03AC3SOFTWAREGLU A:309 , ALA A:310 , ARG A:336 , TRP A:345 , HOH A:806 , HOH A:1008BINDING SITE FOR RESIDUE GOL A 590
04AC4SOFTWARELEU A:515 , PRO A:516 , HIS A:518 , GLY A:540 , GLU A:545 , HOH A:857 , HOH A:1265 , HOH A:1280BINDING SITE FOR RESIDUE GOL A 591
05AC5SOFTWARELEU A:196 , ASN A:197 , VAL A:199 , ARG A:293 , PHE A:408 , HIS A:409 , ASN A:410 , GOL A:597 , HOH A:672BINDING SITE FOR RESIDUE GOL A 592
06AC6SOFTWARETYR A:44 , SER A:117 , LYS A:169 , DBC A:589 , HOH A:842 , HOH A:856 , HOH A:1074BINDING SITE FOR RESIDUE GOL A 593
07AC7SOFTWARELYS A:573 , HOH A:816 , HOH A:1027BINDING SITE FOR RESIDUE GOL A 594
08AC8SOFTWARETRP A:345 , HOH A:878BINDING SITE FOR RESIDUE CL A 595
09AC9SOFTWAREGLY A:365 , SER A:383BINDING SITE FOR RESIDUE CL A 596
10BC1SOFTWAREARG A:148 , ALA A:149 , PRO A:150 , TYR A:152 , PRO A:154 , SER A:159 , GLY A:260 , THR A:405 , LEU A:508 , LYS A:531 , TYR A:532 , HOH A:931 , HOH A:1210BINDING SITE FOR RESIDUE GOL A 3287
11BC2SOFTWARESER A:288 , LEU A:407 , PHE A:408 , ASN A:410 , GLY A:411 , ASP A:412 , GOL A:592 , HOH A:807BINDING SITE FOR RESIDUE GOL A 597
12BC3SOFTWARESER A:372 , SER A:431 , ARG A:519 , HOH A:744 , HOH A:820 , HOH A:870BINDING SITE FOR RESIDUE GOL A 598

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ala A:149 -Pro A:150
2Thr A:206 -Pro A:207
3Trp A:351 -Pro A:352
4Phe A:529 -Pro A:530

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3IDA)

(-) 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:572
 aligned with COCE_RHOSM | Q9L9D7 from UniProtKB/Swiss-Prot  Length:574

    Alignment length:572
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    574 
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573| 
           COCE_RHOSM     4 GNYSVASNVMVPMRDGVRLAVDLYRPDADGPVPVLLVRNPYDKFDVFAWSTQSTNWLEFVRDGYAVVIQDTRGLFASEGEFVPHVDDEADAEDTLSWILEQAWCDGNVGMFGVSYLGVTQWQAAVSGVGGLKAIAPSMASADLYRAPWYGPGGALSVEALLGWSALIGTGLITSRSDARPEDAADFVQLAAILNDVAGAASVTPLAEQPLLGRLIPWVIDQVVDHPDNDESWQSISLFERLGGLATPALITAGWYDGFVGESLRTFVAVKDNADARLVVGPWSHSNLTGRNADRKFGIAATYPIQEATTMHKAFFDRHLRGETDALAGVPKVRLFVMGIDEWRDETDWPLPDTAYTPFYLGGSGAANTSTGGGTLSTSISGTESADTYLYDPADPVPSLGGTLLFHNGDNGPADQRPIHDRDDVLCYSTEVLTDPVEVTGTVSARLFVSSSAVDTDFTAKLVDVFPDGRAIALCDGIVRMRYRETLVNPTLIEAGEIYEVAIDMLATSNVFLPGHRIMVQVSSSNFPKYDRNSNTGGVIAREQLEEMCTAVNRIHRGPEHPSHIVLPIIKR-   -
               SCOP domains d3idaa1 A:4-351 automated matches                                                                                                                                                                                                                                                                                                                           d3idaa2 A:352-575 automated matches                                                                                                                                                                                              SCOP domains
               CATH domains 3idaA01 A:4-145,A:241-348  [code=3.40.50.1820, no name defined]                                                                               3idaA02 A:146-240 alpha-amino acid ester hydrolase ( Helical cap domain)                       3idaA01 A:4-145,A:241-348  [code=3.40.50.1820, no name defined]                                             --------3idaA03 A:357-575 Galactose-binding domain-like                                                                                                                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee.....eeeeeeeee.....eeeeeeee......hhhhhh....hhhhhhh..eeeeee...............hhhhhhhhhhhhhhhh..eeeeeee.eehhhhhhhhhhhh.....eee..ee..................hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh...eeeeee....hhhhhhhhhhhhh....eeeeee.........ee..ee.hhhhh.hhhhhhhhhhhhhhhhhh...........eeeee....eeeee........eeeeeeee............eee.......eeeeeee........................hhhhh.....eeee.......eeeeeeeeeeeeeee.....eeeeeeeee.....eeeeeeeeee.hhh..............eeeeeeeeeeeeee....eeeeeee...............hhhhhhhhhh..eeeeeee......eeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ida A   4 GNYSVASNVMVPMRDGVRLAVDLYRPDADGPVPVLLVRNPYDKFDVFAWSTQSTNWLEFVRDGYAVVIQDTRGLFASEGEFVPHVDDEADAEDTLSWILEQAWCDGNVGMFGVSYLGVTQWQAAVSGVGGLKAIAPSMASADLYRAPWYGPGGALSVEALLGWSAKIGTQLITSRSDARPEDAADFVQLAAILNDVAGAASVTPLAEQPLLGRLIPWVIDQVVDHPDNDESWQSISLFERLGGLATPALITAGWYDGFVGESLRTFVAVKDNADARLVVGPWSHSNLTGRNADRKFGIAATYPIQEATTMHKAFFDRHLRGETDALAGVPKVRLFVMGIDEWRDETDWPLPDTAYTPFYLGGSGAANTSTGGGTLSTSISGTESADTYLYDPADPVPSLGGTLLFHNGDNGPADQRPIHDRDDVLCYSTEVLTDPVEVTGTVSARLFVSSSAVDTDFTAKLVDVFPDGRAIALCDGIVRMRYRETLVNPTLIEAGEIYEVAIDMLATSNVFLPGHRIMVQVSSSNFPKYDRNSNTGGVIAREQLEEMCTAVNRIHRGPEHPSHIVLPIIKRK 575
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573
   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  (2, 2)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (3, 3)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A   (COCE_RHOSM | Q9L9D7)
molecular function
    GO:0052689    carboxylic ester hydrolase activity    Catalysis of the hydrolysis of a carboxylic ester bond.
    GO:0008239    dipeptidyl-peptidase activity    Catalysis of the hydrolysis of N-terminal dipeptides from a polypeptide chain.
    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.
biological process
    GO:0050784    cocaine catabolic process    The chemical reactions and pathways resulting in the breakdown of cocaine, an alkaloid obtained from the dried leaves of the shrub Erythroxylon coca. It is a cerebral stimulant and narcotic.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        COCE_RHOSM | Q9L9D7: 1ju3 1ju4 1l7q 1l7r 3i2f 3i2g 3i2h 3i2i 3i2j 3i2k 3puh 3pui 4p08

(-) Related Entries Specified in the PDB File

3i2g COCE, MUTATION G173Q, ALSO BOUND TO DTT-ADDUCT
3i2i COCE, MUTATION T172R, ALSO BOUND TO DTT-ADDUCT
3i2j WILD-TYPE, NO LIGAND BOUND
3i2k WILD-TYPE, ALSO BOUND TO DTT-ADDUCT