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(-) Description

Title :  CRYSTAL STRCUTURE OF DAPD IN COMPLEX WITH SUCCINYL-COA FROM CORYNEBACTERIUM GLUTAMICUM
 
Authors :  H. -Y. Sagong, K. -J. Kim
Date :  03 Oct 15  (Deposition) - 04 Nov 15  (Release) - 30 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Transferase, Corynebacterium Glutamicum, L-Lysine (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Y. Sagong, K. J. Kim
Crystal Structure And Biochemical Characterization Of Tetrahydrodipicolinate N-Succinyltransferase From Corynebacterium Glutamicum.
J. Agric. Food Chem. V. 63 10641 2015
PubMed-ID: 26602189  |  Reference-DOI: 10.1021/ACS.JAFC.5B04785

(-) Compounds

Molecule 1 - 2,3,4,5-TETRAHYDROPYRIDINE-2,6-DICARBOXYLATE N- SUCCINYLTRANSFERASE
    Chains: A
    EC Number: 2.3.1.117
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET30A
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: DAPD, CGL1106, CG1256
    Organism Scientific: CORYNEBACTERIUM GLUTAMICUM (STRAIN ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025)
    Organism Taxid: 196627
    Strain: ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025
    Synonym: TETRAHYDRODIPICOLINATE N-SUCCINYLTRANSFERASE,THP SUCCINYLTRANSFERASE,TETRAHYDROPICOLINATE SUCCINYLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1SCA1Ligand/IonSUCCINYL-COENZYME A
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1SCA3Ligand/IonSUCCINYL-COENZYME A

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:181 , ARG A:183 , SER A:185 , GLY A:198 , SER A:201 , MET A:203 , GLY A:223 , ALA A:224 , GLU A:239 , ALA A:240 , GLY A:247 , LYS A:249 , LYS A:258 , ARG A:271 , ARG A:272 , ASP A:273 , SER A:274 , HOH A:513 , HOH A:537 , HOH A:580 , HOH A:614 , HOH A:620binding site for residue SCA A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5E3Q)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Lys A:286 -Val A:287

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5E3Q)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5E3Q)

(-) Exons   (0, 0)

(no "Exon" information available for 5E3Q)

(-) 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    
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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:278
                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeee....eeeee...........hhhhheee....eeeeeeeeeee......hhhhhhhhhhhhhh...........hhhhhh..eeee..eeee..hhhhhhhhhh......eeeee...hhhhh......ee.hhhhh...eee....ee....ee...eee....ee..ee....ee....ee....ee....ee....ee....ee........ee....ee....eeee..eeee.hhhh....eeeee......eeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5e3q A   2 TTASATGIATLTSTGDVLDVWYPEIGSTDQSALTPLEGVDEDRNVTRKIVTTTIDIDAAPTDTYDAWLRLHLLSHRVFRPHTINLDGIFGLLNNVVWTNFGPCAVDGFALTRARLSRRGQVTVYSVDKFPRMVDYVVPSGVRIGDADRVRLGAYLADGTTVMHEGFVNFNAGTLGASMVEGRISAGVTVDDGTDVGGGASIMGVISLGKRCLLGANSGCGIPLGDDCIIEAGLYITAGTKVLFDGSLHKASTLAGSNGLIFRRDSVSGQVVAVPNTKV 287
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201  ||   219       229       239       249       259       269       279        
                                                                                                                                                                                                                                    204|                                                                          
                                                                                                                                                                                                                                     213
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5E3Q)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5E3Q)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5E3Q)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)

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        DAPD_CORGL | Q8NRE3: 5e3p 5e3r

(-) Related Entries Specified in the PDB File

5e3p 5e3r