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(-) Description

Title :  CRYSTAL STRUCTURE OF IRIDOID SYNTHASE AT 2.2-ANGSTROM RESOLUTION
 
Authors :  L. Qin, Y. Zhu, Z. Ding, X. Zhang, S. Ye, R. Zhang
Date :  20 Jul 15  (Deposition) - 09 Mar 16  (Release) - 30 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Sdr, P5Br, Rossmann Fold, 1-4 Addition, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Qin, Y. Zhu, Z. Ding, X. Zhang, S. Ye, R. Zhang
Structure Of Iridoid Synthase In Complex With Nadp(+)/8-Oxogeranial Reveals The Structural Basis Of Its Substrate Specificity.
J. Struct. Biol. V. 194 224 2016
PubMed-ID: 26868105  |  Reference-DOI: 10.1016/J.JSB.2016.02.010

(-) Compounds

Molecule 1 - IRIDOID SYNTHASE
    Chains: A, B
    EC Number: 1.3.1.99
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 26-388
    Organism Common: MADAGASCAR PERIWINKLE
    Organism Scientific: CATHARANTHUS ROSEUS
    Organism Taxid: 4058

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1P6G1Ligand/IonHEXAETHYLENE GLYCOL
2SO44Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:113 , LYS A:146 , VAL A:174 , ASN A:176 , PHE A:177 , TYR A:178 , HOH A:2109binding site for residue P6G A 2001
2AC2SOFTWARETHR A:38 , ARG A:66 , ARG A:67binding site for residue SO4 A 2002
3AC3SOFTWARECYS A:244 , TYR A:245 , CYS B:244 , TYR B:245binding site for residue SO4 A 2003
4AC4SOFTWARETHR B:38 , ALA B:65 , ARG B:66 , ARG B:67 , HOH B:618binding site for residue SO4 B 401
5AC5SOFTWAREALA B:310 , ALA B:338 , ALA B:339 , PHE B:340 , TRP B:341 , HOH B:503 , HOH B:584binding site for residue SO4 B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Gly A:57 -Pro A:58
2Ser A:163 -Pro A:164
3Gly B:57 -Pro B:58
4Ser B:163 -Pro B:164

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5COA)

(-) 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:361
                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee...hhhhhhhhhhh.........eeeeeee....hhhhhh...eeee....hhhhhhhhhh......eeee.......hhhhhhhhhhhhhhhhh.......eeeee.hhhhhh..........................hhhhhhhhhhhhhhhhh..eeeeeee..ee........hhhhhhhhhhhhhhhh...ee...hhhhhhh....eehhhhhhhhhhhhhhhhhh.eeeee......hhhhhhhhhhhhh...ee.........hhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhhhhh........hhhhhhh......hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5coa A  27 SYKSVALVVGVTGIVGSSLAEVLKLPDTPGGPWKVYGVARRPCPVWLAKKPVEYIQCDVSDNQETISKLSPLKDITHIFYVSWIGSEDCQTNATMFKNILNSVIPNASNLQHVCLQTGIKHYFGIFEEGSKVVPHDSPFTEDLPRLNVPNFYHDLEDILYEETGKNNLTWSVHRPALVFGFSPCSMMNIVSTLCVYATICKHENKALVYPGSKNSWNCYADAVDADLVAEHEIWAAVDPKAKNQVLNCNNGDVFKWKHIWKKLAEEFGIEMVGYVEGKEQVSLAELMKDKDQVWDEIVKKNNLVPTKLKEIAAFWFADIAFCSENLISSMNKSKELGFLGFRNSMKSFVSCIDKMRDYRFI 387
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386 


Chain B from PDB  Type:PROTEIN  Length:351
                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee...hhhhhhhhhhhh........eeeeeee....hhhhhh...eeee....hhhhhhhhhh......eeee.........hhhhhhhhhhhhhhh.......eeeee.hhhhh.................hhhhhhhhhhhhhhhhh..eeeeeee.eee........hhhhhhhhhhhhhhhh...ee...hhhhhhh...eeehhhhhhhhhhhhhhhhhh.eeeee......hhhhhhhhhhhhh...ee.........hhhhhh..hhhhhhhhhhhh.....hhhhhhhhhhhhhhh........hhhhhhh......hhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5coa B  27 SYKSVALVVGVTGIVGSSLAEVLKLPDTPGGPWKVYGVARRPCPVWLAKKPVEYIQCDVSDNQETISKLSPLKDITHIFYVSWIGSEDCQTNATMFKNILNSVIPNASNLQHVCLQTGIKHYFPHDSPFTEDLPRLNVPNFYHDLEDILYEETGKNNLTWSVHRPALVFGFSPCSMMNIVSTLCVYATICKHENKALVYPGSKNSWNCYADAVDADLVAEHEIWAAVDPKAKNQVLNCNNGDVFKWKHIWKKLAEEFGIEMVGYVEGKEQVSLAELMKDKDQVWDEIVKKNNLVPTKLKEIAAFWFADIAFCSENLISSMNKSKELGFLGFRNSMKSFVSCIDKMRDYRFI 387
                                    36        46        56        66        76        86        96       106       116       126       136       146  ||   166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386 
                                                                                                                                                    149|                                                                                                                                                                                                                                   
                                                                                                                                                     160
   Legend:   → Mismatch (orange background)
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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 5COA)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

5cob