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(-) Description

Title :  CRYSTAL STRUCTURE OF LAVANDULYL DIPHOSPHATE SYNTHASE FROM LAVANDULA X INTERMEDIA IN COMPLEX WITH DIMETHYLALLYL DIPHOSPHATE
 
Authors :  M. X. Liu, W. D. Liu, J. Gao, Y. Y. Zheng, C. C. Chen, R. T. Guo
Date :  04 Jan 16  (Deposition) - 02 Mar 16  (Release) - 13 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.87
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Substrate Binding, Prenyltransferase, Substrate, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. X. Liu, C. C. Chen, L. Chen, X. S. Xiao, Y. Y. Zheng, J. W. Huang, W. D. Liu, T. P. Ko, Y. S. Cheng, X. X. Feng, E. Oldfield, R. T. Guo, Y. H. Ma
Structure And Function Of A "Head-To-Middle" Prenyltransferase: Lavandulyl Diphosphate Synthase
Angew. Chem. Int. Ed. Engl. V. 55 4721 2016
PubMed-ID: 26922900  |  Reference-DOI: 10.1002/ANIE.201600656

(-) Compounds

Molecule 1 - PRENYLTRANSFERENCE FOR PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET46EK/LIC
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: LAVANDULA LANATA
    Organism Taxid: 39330

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 5)

Asymmetric Unit (5, 5)
No.NameCountTypeFull Name
161G1Ligand/Ion2-METHYLBUTA-1,3-DIENE
2ISY1Ligand/Ion3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC ACID
3MG1Ligand/IonMAGNESIUM ION
4PIS1Ligand/IonTRIHYDROGEN THIODIPHOSPHATE
5SO41Ligand/IonSULFATE ION
Biological Unit 1 (4, 8)
No.NameCountTypeFull Name
161G2Ligand/Ion2-METHYLBUTA-1,3-DIENE
2ISY2Ligand/Ion3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC ACID
3MG-1Ligand/IonMAGNESIUM ION
4PIS2Ligand/IonTRIHYDROGEN THIODIPHOSPHATE
5SO42Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:76 , PIS A:402 , ISY A:405 , HOH A:513 , HOH A:514binding site for residue MG A 401
2AC2SOFTWAREASP A:76 , GLY A:77 , HIS A:78 , ARG A:79 , LYS A:80 , HIS A:93 , ARG A:127 , MG A:401 , 61G A:403 , ISY A:405 , HOH A:501 , HOH A:509 , HOH A:513 , HOH A:514 , HOH A:517binding site for residue PIS A 402
3AC3SOFTWAREHIS A:78 , ALA A:119 , ASN A:124 , ARG A:127 , TYR A:139 , PIS A:402 , HOH A:562binding site for residue 61G A 403
4AC4SOFTWAREHIS A:190 , THR A:238 , LYS A:239 , HOH A:503binding site for residue SO4 A 404
5AC5SOFTWAREILE A:74 , ILE A:75 , ASP A:76 , TRP A:118 , SER A:121 , ASN A:124 , ARG A:127 , ARG A:248 , ARG A:254 , SER A:256 , GLY A:296 , PHE A:297 , GLY A:298 , MG A:401 , PIS A:402 , HOH A:513 , HOH A:514 , HOH A:525 , HOH A:531 , HOH A:546binding site for residue ISY A 405

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5HC8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5HC8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5HC8)

(-) Exons   (0, 0)

(no "Exon" information available for 5HC8)

(-) 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    
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee..hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeee.hhhhhhhhhhhhhhhhhhhhh.....eeeeee..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh......eeee..................eeee...hhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hc8 A  64 DEVTPNHVAIIIDGHRKWAKSRGVTVQEGHQTGVNNWKHIISRASQLGIKLLTIWALSPQNFNRSKMEVDFLMRIYEDFLRSDVKELVTSQQDIQFSAIGDKSRLPEYLQDAISYAEGLSQANKGMHFILAVAYGGREDIVEAARKIAAKVEHGILRPDDIDEATFEQHLMTNITKFPSPDLLIRAAGEQRLSNFFLWQLPFTEFYFTPKLFPDFGEADLLDALASYRCRYRGFGE 299
                                    73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293
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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 5HC8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5HC8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5HC8)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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 Related Entries

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        A0A140UHQ1_L | A0A140UHQ1: 5hc6 5hc7

(-) Related Entries Specified in the PDB File

5hc6 5hc7