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(-) Description

Title :  CRYSTAL STRUCTURES OF THE ARABIDOPSIS CINNAMYL ALCOHOL DEHYDROGENASES ATCAD5
 
Authors :  B. Youn, R. Camacho, S. G. Moinuddin, C. Lee, L. B. Davin, N. G. Lewis, C. Kang
Date :  16 Feb 06  (Deposition) - 20 Feb 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Lignin Biosynthesis, Metal-Binding, Nadp, Oxidoreductase, Zinc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Youn, R. Camacho, S. G. Moinuddin, C. Lee, L. B. Davin, N. G. Lewis, C. Kang
Crystal Structures And Catalytic Mechanisms Of The Arabidopsis Cinnamyl Alcohol Dehydrogenases Atcad5 And Atcad4
Org. Biomol. Chem. V. 4 1687 2006
PubMed-ID: 16633561  |  Reference-DOI: 10.1039/B601672C

(-) Compounds

Molecule 1 - CINNAMYL ALCOHOL DEHYDROGENASE
    Chains: A
    EC Number: 1.1.1.195
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET151D-TOPO TA VECTOR
    Expression System Strain: ER2566
    Expression System Taxid: 562
    Expression System Vector: PET VECTOR
    Organism Common: MOUSE EAR CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: ATCCAD5, CAD

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
2ZN2Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:100 , CYS A:103 , CYS A:106 , CYS A:114 , HOH A:2134BINDING SITE FOR RESIDUE ZN A 401
2AC2SOFTWARECYS A:47 , HIS A:69 , GLU A:70 , CYS A:163 , HOH A:2135BINDING SITE FOR RESIDUE ZN A 402
3AC3SOFTWAREHIS A:48 , THR A:49 , THR A:167 , LEU A:189 , GLY A:190 , GLY A:191 , VAL A:192 , SER A:211 , SER A:212 , LYS A:216 , THR A:251 , PRO A:253 , MET A:274 , GLY A:275 , MET A:289 , SER A:298 , PHE A:299 , ILE A:300 , HOH A:2140BINDING SITE FOR RESIDUE NAP A 450

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2CF6)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gly A:33 -Pro A:34
2Tyr A:63 -Pro A:64

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2CF6)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADH_ZINCPS00059 Zinc-containing alcohol dehydrogenases signature.CADH5_ARATH68-82  1A:68-82

(-) Exons   (0, 0)

(no "Exon" information available for 2CF6)

(-) 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:352
 aligned with CADH5_ARATH | O49482 from UniProtKB/Swiss-Prot  Length:357

    Alignment length:352
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355  
          CADH5_ARATH     6 AERKTTGWAARDPSGILSPYTYTLRETGPEDVNIRIICCGICHTDLHQTKNDLGMSNYPMVPGHEVVGEVVEVGSDVSKFTVGDIVGVGCLVGCCGGCSPCERDLEQYCPKKIWSYNDVYINGQPTQGGFAKATVVHQKFVVKIPEGMAVEQAAPLLCAGVTVYSPLSHFGLKQPGLRGGILGLGGVGHMGVKIAKAMGHHVTVISSSNKKREEALQDLGADDYVIGSDQAKMSELADSLDYVIDTVPVHHALEPYLSLLKLDGKLILMGVINNPLQFLTPLLMLGRKVITGSFIGSMKETEEMLEFCKEKGLSSIIEVVKMDYVNTAFERLEKNDVRYRFVVDVEGSNLDA 357
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2cf6A01 A:6-163,A:321-357 Medium-chain alcohol dehydrogenases, catalytic domain                                                                               2cf6A02 A:164-320 NAD(P)-binding Rossmann-like Domain                                                                                                        2cf6A01 A:6-163,A:321-357             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee................ee.......eeeee.......hhhhhhhhh..............ee..eeee............eee.........hhhhh...............ee.....ee......eeeee...eee..........hhhhhhhhhh.hhhhhh.....eeeeeee...hhhhhhhhhhhhh.eeeeeee..hhhhh.........eeee..hhhhhh.....eeeeee......hhhhhhh.eeeeeeeee..........hhhhhhhhh.eeee....hhhhhhhhhhhhhhh......eeehhhhhhhhhhhhhh......eee......... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------ADH_ZINC       ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cf6 A   6 AERKTTGWAARDPSGILSPYTYTLRETGPEDVNIRIICCGICHTDLHQTKNDLGMSNYPMVPGHEVVGEVVEVGSDVSKFTVGDIVGVGCLVGCCGGCSPCERDLEQYCPKKIWSYNDVYINGQPTQGGFAKATVVHQKFVVKIPEGMAVEQAAPLLCAGVTVYSPLSHFGLKQPGLRGGILGLGGVGHMGVKIAKAMGHHVTVISSSNKKREEALQDLGADDYVIGSDQAKMSELADSLDYVIDTVPVHHALEPYLSLLKLDGKLILMGVINNPLQFLTPLLMLGRKVITGSFIGSMKETEEMLEFCKEKGLSSIIEVVKMDYVNTAFERLEKNDVRYRFVVDVEGSNLDA 357
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355
   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 2CF6)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CF6)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CADH5_ARATH | O49482)
molecular function
    GO:0045551    cinnamyl-alcohol dehydrogenase activity    Catalysis of the reaction: cinnamyl alcohol + NADP+ = cinnamaldehyde + NADPH + H+.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0052747    sinapyl alcohol dehydrogenase activity    Catalysis of the reaction: sinapaldehyde + NADPH + H+ = sinapyl-alcohol + NADP+.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0009809    lignin biosynthetic process    The chemical reactions and pathways resulting in the formation of lignins, a class of polymers formed by the dehydrogenetive radical polymerization of various phenylpropanoid monomers.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0009699    phenylpropanoid biosynthetic process    The chemical reactions and pathways resulting in the formation of aromatic derivatives of trans-cinnamic acid.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CADH5_ARATH | O49482: 2cf5

(-) Related Entries Specified in the PDB File

2cf5 CRYSTAL STRUCTURES OF THE ARABIDOPSIS CINNAMYL ALCOHOL DEHYDROGENASES, ATCAD5