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(-) Description

Title :  CRYSTAL STRUCTURE OF TYROSINASE FROM BACILLUS MEGATERIUM WITH INHIBITOR KOJIC ACID IN THE ACTIVE SITE
 
Authors :  M. Kanteev, M. Goldfeder, B. Deri, N. Adir, A. Fishman
Date :  10 Feb 16  (Deposition) - 12 Oct 16  (Release) - 19 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Di-Copper Oxidase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Deri, M. Kanteev, M. Goldfeder, D. Lecina, V. Guallar, N. Adir, A. Fishman
The Unravelling Of The Complex Pattern Of Tyrosinase Inhibition.
Sci Rep V. 6 34993 2016
PubMed-ID: 27725765  |  Reference-DOI: 10.1038/SREP34993

(-) Compounds

Molecule 1 - TYROSINASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET9D
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: BACILLUS MEGATERIUM
    Organism Taxid: 1404

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1CU4Ligand/IonCOPPER (II) ION
2KOJ2Ligand/Ion5-HYDROXY-2-(HYDROXYMETHYL)-4H-PYRAN-4-ONE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:204 , HIS A:208 , PHE A:227 , HIS A:231 , KOJ A:303 , HOH A:401binding site for residue CU A 301
2AC2SOFTWAREHIS A:42 , HIS A:60 , HIS A:69 , PHE A:227 , KOJ A:303 , HOH A:401binding site for residue CU A 302
3AC3SOFTWAREHIS A:42 , HIS A:60 , HIS A:204 , ASN A:205 , HIS A:208 , VAL A:217 , VAL A:218 , ALA A:221 , CU A:301 , CU A:302 , HOH A:401 , HOH A:445binding site for residue KOJ A 303
4AC4SOFTWAREHIS B:42 , HIS B:60 , HIS B:69 , PHE B:227 , KOJ B:303 , HOH B:401binding site for residue CU B 301
5AC5SOFTWAREHIS B:204 , HIS B:208 , HIS B:231 , KOJ B:303 , HOH B:401binding site for residue CU B 302
6AC6SOFTWAREHIS B:42 , HIS B:60 , HIS B:204 , ASN B:205 , HIS B:208 , GLY B:216 , VAL B:218 , ALA B:221 , CU B:301 , CU B:302 , HOH B:401binding site for residue KOJ B 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5I38)

(-) Cis Peptide Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1Thr A:50 -Pro A:51
2Pro A:180 -Pro A:181
3Gly A:200 -Pro A:201
4Gln A:251 -Pro A:252
5Tyr A:267 -Pro A:268
6Thr B:50 -Pro B:51
7Pro B:180 -Pro B:181
8Gly B:200 -Pro B:201
9Gln B:251 -Pro B:252
10Tyr B:267 -Pro B:268

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5I38)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5I38)

(-) Exons   (0, 0)

(no "Exon" information available for 5I38)

(-) 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:286
                                                                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee.hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhh........hhhhhh...hhhhhhhhh........hhhhh........................................hhhhhhhhhh...............hhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh...........................hhhhh.......ee.hhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i38 A   5 YRVRKNVLHLTDTEKRDFVRTVLILKEKGIYDRYIAWHGAAGKFHTPPGSDRNAAHMSSAFLPWHREYLLRFERDLQSINPEVTLPYWEWETDAQMQDPSQSQIWSADFMGGNGNPIKDFIVDTGPFAAGRWTTIDEQGNPSGGLKRNFGATKEAPTLPTRDDVLNALKITQYDTPPWDMTSQNSFRNQLEGFINGPQLHNRVHRWVGGQMGVVPTAPNDPVFFLHHANVDRIWAVWQIIHRNQNYQPMKNGPFGQNFRDPMYPWNTTPEDVMNHRKLGYVYDIEL 290
                                    14        24        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      


Chain B from PDB  Type:PROTEIN  Length:287
                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhh........hhhhhh...hhhhhhhhh........hhhhh........................................hhhhhhhhhh...............hhhhhhhh.....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh...........................hhhhh.......ee.hhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i38 B   4 KYRVRKNVLHLTDTEKRDFVRTVLILKEKGIYDRYIAWHGAAGKFHTPPGSDRNAAHMSSAFLPWHREYLLRFERDLQSINPEVTLPYWEWETDAQMQDPSQSQIWSADFMGGNGNPIKDFIVDTGPFAAGRWTTIDEQGNPSGGLKRNFGATKEAPTLPTRDDVLNALKITQYDTPPWDMTSQNSFRNQLEGFINGPQLHNRVHRWVGGQMGVVPTAPNDPVFFLHHANVDRIWAVWQIIHRNQNYQPMKNGPFGQNFRDPMYPWNTTPEDVMNHRKLGYVYDIEL 290
                                    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
   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 5I38)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5I38)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5I38)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gln A:251 - Pro A:252   [ RasMol ]  
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    Gly B:200 - Pro B:201   [ RasMol ]  
    Pro A:180 - Pro A:181   [ RasMol ]  
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    Thr A:50 - Pro A:51   [ RasMol ]  
    Thr B:50 - Pro B:51   [ RasMol ]  
    Tyr A:267 - Pro A:268   [ RasMol ]  
    Tyr B:267 - Pro B:268   [ RasMol ]  
 

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  5i38
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 Related Entries

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

UniProtKB/TrEMBL
        B2ZB02_BACME | B2ZB02: 3nm8 3npy 3nq0 3nq1 3nq5 3ntm 4d87 4hd4 4hd6 4hd7 4j6t 4j6u 4j6v 4p6r 4p6s 4p6t 5i3a 5i3b

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5I38)