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(-) Description

Title :  IRIDOID SYNTHASE FROM CATHARANTHUS ROSEUS - LIGAND FREE STRUCTURE
 
Authors :  L. Caputi, H. Kries, C. E. M. Stevenson, M. O. Kamileen, N. H. Sherden, F. Flores, D. M. Lawson, S. E. O'Connor
Date :  24 Aug 15  (Deposition) - 28 Oct 15  (Release) - 30 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Iridoid Synthase, Short Chain Dehydrogenase, Nadph-Dependent, Catharanthus Roseus, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Kries, L. Caputi, C. E. Stevenson, M. O. Kamileen, N. H. Sherden, F. Geu-Flores, D. M. Lawson, S. E. O'Connor
Structural Determinants Of Reductive Terpene Cyclization In Iridoid Biosynthesis.
Nat. Chem. Biol. V. 12 6 2016
PubMed-ID: 26551396  |  Reference-DOI: 10.1038/NCHEMBIO.1955

(-) Compounds

Molecule 1 - IRIDOID SYNTHASE
    Chains: A
    EC Number: 1.3.1.99
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: POPIN-F
    Expression System Taxid: 469008
    Expression System Variant: ROSETTA 2
    Fragment: RESIDUES 23-388
    Organism Common: MADAGASCAR PERIWINKLE
    Organism Scientific: CATHARANTHUS ROSEUS
    Organism Taxid: 4058
    Other Details: THE CRYSTALLISED PROTEIN CONTAINED RESIDUES 23-388 OF THE WILD-TYPE AMINO ACID SEQUENCE. THE SEQUENCE DIFFERED FROM DATABASE ENTRY K7WDL7 BY AN ASP TO ASN CHANGE AT POSITION 87. THE N- TERMINUS RETAINED TWO RESIDUES FROM THE NICKEL AFFINITY CLEAVAGE SITE. THE C-TERMINUS HAD AN ADDITIONAL THREE VECTOR-DERIVED RESIDUES.

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1EDO4Ligand/Ion1,2-ETHANEDIOL
Biological Unit 1 (1, 8)
No.NameCountTypeFull Name
1EDO8Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:288 , GLU A:291 , GLU A:292 , HOH A:1150binding site for residue EDO A 900
2AC2SOFTWAREASP A:250 , ASP A:252 , SER A:376 , CYS A:377 , HOH A:1026binding site for residue EDO A 901
3AC3SOFTWARESER A:30 , HIS A:103 , GLN A:137 , ALA A:262 , LYS A:268binding site for residue EDO A 902
4AC4SOFTWAREALA A:338 , ALA A:339 , PHE A:340 , TRP A:341 , HOH A:1004 , HOH A:1069 , HOH A:1159binding site for residue EDO A 903

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 3)

Asymmetric Unit
No.Residues
1Gly A:57 -Pro A:58
2Ser A:163 -Pro A:164

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5DCW)

(-) 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:358
                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...hhhhhhhhhhh.........eeeeeee....hhhhhh...eeee....hhhhhhhhhh......eeee......hhhhhhhhhhhhhhh.......eeeee....hhhhh.....................hhhhhhhhhhhhhhhhh..eeeeeee..ee........hhhhhhhhhhhhhhhh...ee...hhhhhhh....eehhhhhhhhhhhhhhhhhh.eeeee......hhhhhhhhhhhhhh..ee.........hhhhhhh.hhhhhhhhhhhh.....hhhhhhhhhhhhhhh........hhhhhhh......hhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5dcw A  28 YKSVALVVGVTGIVGSSLAEVLKLPDTPGGPWKVYGVARRPCPVWLAKKPVEYIQCDVSNNQETISKLSPLKDITHIFYVSWIGCQTNATMFKNILNSVIPNASNLQHVCLQTGIKHYFGIFEKVVPHDSPFTEDLPRLNVPNFYHDLEDILYEETGKNNLTWSVHRPALVFGFSPCSMMNIVSTLCVYATICKHENKALVYPGSKNSWNCYADAVDADLVAEHEIWAAVDPKAKNQVLNCNNGDVFKWKHIWKKLAEEFGIEMVGYVEGKEQVSLAELMKDKDQVWDEIVKKNNLVPTKLKEIAAFWFADIAFCSENLISSMNKSKELGFLGFRNSMKSFVSCIDKMRDYRFIPKAF 391
                                    37        47        57        67        77        87        97       107   ||  120       130       140       150  ||   163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383        
                                                                                                             111|                                   153|                                                                                                                                                                                                                                          
                                                                                                              115                                    157
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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 5DCW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

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  5dcw
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 Related Entries

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

UniProtKB/Swiss-Prot
        IRIS_CATRO | K7WDL7: 5coa 5cob 5dbf 5dbg 5dbi 5dcu 5dcy 5df1 5emh

(-) Related Entries Specified in the PDB File

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