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(-) Description

Title :  CRYSTAL STRUCTURE OF DEOXYRIBOSE-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI (K58E-Y96W MUTANT) AFTER ACETALDEHYDE TREATMENT AND HEATING
 
Authors :  O. H. Weiergraeber, M. Dick, J. Pietruszka
Date :  06 Nov 15  (Deposition) - 04 May 16  (Release) - 04 May 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Dera, Tim Barrel, Lyase, Suicide Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Dick, R. Hartmann, O. H. Weiergraeber, C. Bisterfeld, T. Classen, M. Schwarten, P. Neudecker, D. Willbold, J. Pietruszka
Mechanism-Based Inhibition Of An Aldolase At High Concentrations Of Its Natural Substrate Acetaldehyde: Structural Insights And Protective Strategies.
Chem Sci 2016
PubMed: search  |  Reference-DOI: 10.1039/C5SC04574F

(-) Compounds

Molecule 1 - DEOXYRIBOSE-PHOSPHATE ALDOLASE
    Chains: A
    EC Number: 4.1.2.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET21A
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DEOC, DRA, THYR, B4381, JW4344
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI K-12
    Organism Taxid: 83333
    Synonym: DERA,2-DEOXY-D-RIBOSE 5-PHOSPHATE ALDOLASE, PHOSPHODEOXYRIBOALDOLASE,DEOXYRIBOALDOLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
11BO1Ligand/Ion1-BUTANOL
2EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:18 , CYS A:47 , VAL A:73 , ASP A:102 , LYS A:167 , THR A:170 , LYS A:201binding site for residue 1BO A 301
2AC2SOFTWARETYR A:49 , PRO A:50 , ARG A:51 , PHE A:76 , HIS A:78 , GLU A:89 , ALA A:174 , HOH A:417 , HOH A:447 , HOH A:564 , HOH A:592binding site for residue EPE A 302

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Phe A:76 -Pro A:77

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5EMU)

(-) 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:249
                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhheeee......hhhhhhhhhhhhee..ee..eee.hhhhhhhhhhhhhhh.....eeeeee.......hhhhhhhhhhhhhhhh..eeeee.hhhhhhh..hhhhhhhhhhhhhhhhhh..eeeee.hhhhhhhhhhhhhhhhhhhhh...eee..........hhhhhhhhhhhhhhh......eee......hhhhhhhhhhhhhhhhh..........eee.hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5emu A   3 DLKASSLRALKLMDLTTLNDDDTDEKVIALCHQAKTPVGNTAAICIYPRFIPIARETLKEQGTPEIRIATVTNFPHGNDDIDIALAETRAAIAWGADEVDVVFPYRALMAGNEQVGFDLVKACKEACAAANVLLKVIIETGELKDEALIRKASEISIKAGADFIKTSTGKVAVNATPESARIMMEVIRDMGVEKTVGFKPAGGVRTAEDAQKYLAIADELFGADWADARHYRFGASSLLASLLKALGHG 251
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242
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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 5EMU)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        DEOC_ECOLI | P0A6L0: 1jcj 1jcl 1ktn 1p1x 5eky 5el1

(-) Related Entries Specified in the PDB File

5eky 5el1