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(-) Description

Title :  STRUCTURE OF THE AMINOALDEHYDE DEHYDROGENASE 1 E260A MUTANT FROM SOLANUM LYCOPERSICUM (SLAMADH1-E260A)
 
Authors :  S. Morera, A. Vigouroux, D. Kopecny
Date :  04 Dec 12  (Deposition) - 20 Feb 13  (Release) - 01 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Amadh10 Family Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Kopecny, R. Koncitikova, M. Tylichova, A. Vigouroux, H. Moskalikova, M. Soural, M. Sebela, S. Morera
Plant Aldh10 Family: Identifying Critical Residues For Substrate Specificity And Trapping A Thiohemiacetal Intermediate.
J. Biol. Chem. V. 288 9491 2013
PubMed-ID: 23408433  |  Reference-DOI: 10.1074/JBC.M112.443952

(-) Compounds

Molecule 1 - PUTATIVE BETAINE ALDEHYDE DEHYROGENASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCDFDUET
    Expression System Strain: BL21 PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SOLYC06G071290.2
    Mutation: YES
    Organism Common: TOMATO
    Organism Scientific: SOLANUM LYCOPERSICUM
    Organism Taxid: 4081
    Synonym: AMINOALDEHYDE DEHYDROGENASE 1

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric Unit (4, 12)
No.NameCountTypeFull Name
1EDO7Ligand/Ion1,2-ETHANEDIOL
2NA1Ligand/IonSODIUM ION
3NAD1Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
4PEG3Ligand/IonDI(HYDROXYETHYL)ETHER
Biological Unit 1 (3, 22)
No.NameCountTypeFull Name
1EDO14Ligand/Ion1,2-ETHANEDIOL
2NA-1Ligand/IonSODIUM ION
3NAD2Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
4PEG6Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:158 , THR A:159 , PRO A:160 , TRP A:161 , ASN A:162 , LYS A:185 , PRO A:186 , SER A:187 , GLU A:188 , GLY A:218 , GLY A:222 , GLY A:223 , PHE A:236 , THR A:237 , GLY A:238 , SER A:239 , THR A:242 , ILE A:246 , ALA A:260 , LEU A:261 , GLY A:262 , CYS A:295 , GLU A:394 , PHE A:396 , TRP A:460BINDING SITE FOR RESIDUE NAD A 601
2AC2SOFTWARETHR A:35 , GLU A:37 , LYS A:372BINDING SITE FOR RESIDUE EDO A 602
3AC3SOFTWAREILE A:324 , HIS A:369BINDING SITE FOR RESIDUE EDO A 603
4AC4SOFTWAREASN A:26 , ILE A:38 , ILE A:39 , GLY A:40BINDING SITE FOR RESIDUE EDO A 605
5AC5SOFTWAREGLU A:493BINDING SITE FOR RESIDUE PEG A 607
6AC6SOFTWAREPRO A:241BINDING SITE FOR RESIDUE EDO A 608
7AC7SOFTWAREASP A:113 , TRP A:170 , ASN A:456BINDING SITE FOR RESIDUE EDO A 609
8AC8SOFTWAREILE A:31 , ASP A:99 , LEU A:189BINDING SITE FOR RESIDUE NA A 612

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4I8Q)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4I8Q)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4I8Q)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4I8Q)

(-) Exons   (0, 0)

(no "Exon" information available for 4I8Q)

(-) 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:495
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4i8qa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee..eee......eeeeee....eeeeeee..hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee......eeeeeeeee..eeeee....hhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhhhhh.....eee...hhhhhhhhhhh.....eeeee.hhhhhhhhhhhhhhh...eeee....eeeee.....hhhhhhhhhhhhhhhhhhh....eeeeeeehhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhhhh.eeee................eeee.....hhhhhh.....eeeeeee.hhhhhhhhhh......eeeee..hhhhhhhhhhhh...eeee..............hhh.ee.....hhhhhh.eeeeeeeee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4i8q A   7 PIPRRQLYIGGEWREPVKKNRIPIINPATEEIIGDIPAATAEDVDIAVEAARKAIARDDWGSTTGAQRAKYLRAIAAKVLEKKSVLATLESLDSGKTLYESAADMDDVAGCFEYYAGLAEALDSRRMTPVNLNSDSYKSYVLREPLGVVGLITPWNYPLLMAIWKVAPALAAGCAAILKPSELASITCLELGEICREIGLPSGALNILTGLGPEAGGPLASHPHVDKISFTGSGPTGSKIMTAAAQLVKPVSLALGGKSPIVVFDDIDNLDIAAEWTLFGIFANTGQVCSATSRLIVQENIASAFMDRLLKWTKNIKISDPLEEDCKLGPVVSAGQYEKVLKFISNAKSEGATILCGGERPQHLKKGYYVQPTIITDVNTSMEIWKEEVFGPVLCVKTFKTEEQAIELANDTKYGLGAAVMSKDVKRCERFTKAFQTGIIWINCSQPTFNELPWGGKKRSGFGRDLGKWGLENFLNIKQVTEYTSAEPLAFYKSP 501
                                    16        26        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       396       406       416       426       436       446       456       466       476       486       496
   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  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4I8Q)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4I8Q)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/TrEMBL
        Q56R04_SOLLC | Q56R04: 4i9b

(-) Related Entries Specified in the PDB File

3iwj 3iwk 4i8p