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(-) Description

Title :  CRYSTAL STRUCTURE OF DMDD E121A IN COMPLEX WITH MMPA-COA
 
Authors :  D. Tan, L. Tong
Date :  29 Jan 13  (Deposition) - 05 Jun 13  (Release) - 05 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Enoyl-Coa Hydratase, Hydrolase, Dimethyl-Sulphoniopropionate (Dmsp) Metabolism, Methylthioacryloyl-Coa (Mta-Coa), Crotonase Fold, Hydrolase-Substrate Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Tan, W. M. Crabb, W. B. Whitman, L. Tong
Crystal Structure Of Dmdd, A Crotonase Superfamily Enzyme That Catalyzes The Hydration And Hydrolysis Of Methylthioacryloyl-Coa.
Plos One V. 8 63870 2013
PubMed-ID: 23704947  |  Reference-DOI: 10.1371/JOURNAL.PONE.0063870

(-) Compounds

Molecule 1 - ENOYL-COA HYDRATASE/ISOMERASE FAMILY PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET 26B
    Expression System Strain: BL-21 STAR
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: DMDD
    Mutation: YES
    Organism Scientific: RUEGERIA POMEROYI
    Organism Taxid: 246200
    Strain: DSS-3

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
11HE2Ligand/Ion3-METHYLMERCAPTOPROPIONATE-COA (MMPA-COA)
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
11HE6Ligand/Ion3-METHYLMERCAPTOPROPIONATE-COA (MMPA-COA)

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:30 , LYS A:31 , ARG A:32 , ALA A:34 , ALA A:69 , LEU A:71 , ASP A:72 , LEU A:73 , VAL A:74 , TYR A:136 , HOH A:521 , HOH A:551 , HOH A:597 , GLN B:3 , ASP B:4 , LYS B:53BINDING SITE FOR RESIDUE 1HE A 301
2AC2SOFTWAREASP B:30 , LYS B:31 , ARG B:32 , ALA B:34 , HIS B:66 , ALA B:69 , LEU B:71 , ASP B:72 , LEU B:73 , VAL B:116 , GLY B:117 , GLY B:118 , TYR B:136 , GLU B:141 , ARG B:144 , ILE B:146 , GLY B:149 , PHE B:255 , HOH B:520 , HOH B:534BINDING SITE FOR RESIDUE 1HE B 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4IZD)

(-) 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:253
                                                                                                                                                                                                                                                                                             
               SCOP domains d4izda_ A: automated matches                                                                                                                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh....eeeee....eeeeee.hhhhh...hhhhhhhhhhhhhhh......eeeeee.........hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh...eeee...eeehhhhhhhhh..eeee....eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhh...ee...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4izd A   2 TQDVTSGYSNLDLDLRDNGVCVVTLNRPDKRNALDVATIEELVTFFSTAHRKGVRAVVLTGAGDHFCAGLDLVEHWKADRSADDFMHVCLRWHEAFNKMEYGGVPIIAALRGAVVGGGLALASAAHLRVMDQSTYFALPEGQRGIFTGGGATIRVSDMIGKYRMIDMILTGRVYQGQEAADLGLAQYITEGSSFDKAMELADKIASNLPLTNFAICSAISHMQNMSGLDAAYAEAFVGGIVNTQPAARERLEA 254
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251   


Chain B from PDB  Type:PROTEIN  Length:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains d4izdb_ B: automated matches                                                                                                                                                                                                                                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh....eeeee....eeeeee.hhhhh...hhhhhhhhhhhhhhh......eeeeee.........hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh...eeee...eeehhhhhhhhh..eeee....eeehhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhh...ee...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4izd B   2 TQDVTSGYSNLDLDLRDNGVCVVTLNRPDKRNALDVATIEELVTFFSTAHRKGVRAVVLTGAGDHFCAGLDLVEHWKADRSADDFMHVCLRWHEAFNKMEYGGVPIIAALRGAVVGGGLALASAAHLRVMDQSTYFALPEGQRGIFTGGGATIRVSDMIGKYRMIDMILTGRVYQGQEAADLGLAQYITEGSSFDKAMELADKIASNLPLTNFAICSAISHMQNMSGLDAAYAEAFVGGIVNTQPAARERLEAFANKTA 260
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251
   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, 2)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        DMDD_RUEPO | Q5LLW6: 4izb 4izc

(-) Related Entries Specified in the PDB File

4izb CRYSTAL STRUCTURE OF DMDD FREE ENZYME
4izc CRYSTAL STRUCTURE OF DMDD E121A IN COMPLEX WITH MTA-COA