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(-) Description

Title :  CRYSTAL STRCUTURE OF DAPB IN COMPLEX WITH NADP+ FROM CORYNEBACTERIUM GLUTAMICUM
 
Authors :  H. -Y. Sagong, K. -J. Kim
Date :  23 Oct 15  (Deposition) - 11 Nov 15  (Release) - 11 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Oxidoreductase (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
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 4-HYDROXY-TETRAHYDRODIPICOLINATE REDUCTASE
    Chains: A
    EC Number: 1.17.1.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET30A
    Expression System Strain: BL21(DE)-T1R
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: DAPB, CGL1973, CG2163
    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: HTPA REDUCTASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
3SO42Ligand/IonSULFATE ION
Biological Unit 1 (3, 16)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2NAP4Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
3SO48Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:58 , ARG A:85 , GLN A:88 , PRO A:142 , GLN A:171 , HOH A:416 , HOH A:431 , HOH A:449 , HOH A:484binding site for residue GOL A 301
2AC2SOFTWAREGLY A:9 , LYS A:11 , GLY A:12 , ARG A:13 , VAL A:14 , ILE A:34 , GLY A:35 , VAL A:36 , PHE A:54 , THR A:55 , ALA A:59 , GLY A:77 , THR A:79 , ALA A:104 , PRO A:105 , ASN A:106 , PHE A:107 , PHE A:221 , HOH A:401 , HOH A:407 , HOH A:413 , HOH A:414 , HOH A:465 , HOH A:470binding site for residue NAP A 302
3AC3SOFTWARELYS A:138 , ASP A:140 , SER A:143 , GLY A:144 , THR A:145binding site for residue SO4 A 303
4AC4SOFTWAREHIS A:135 , LYS A:138binding site for residue SO4 A 304

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:141 -Pro A:142

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5EES)

(-) 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:247
                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...hhhhhhhhhhhhhh...eeeeee.....hhhhhhh...eeee..hhhhhhhhhhhhhhh..eeee.....hhhhhhhhhhhhh.....eeee....hhhhhhhhhhhhhhhhhh.eeeeeeee........hhhhhhhhhhhhhhhhhh..................eee..eeeeeee.....eeeeeeeee..eeeeeeeee.....hhhhhhhhhhhhhhh.eeee.hhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ees A   2 GIKVGVLGAKGRVGQTIVAAVNESDDLELVAEIGVDDDLSLLVDNGAEVVVDFTTPNAVMGNLEFCINNGISAVVGTTGFDDARLEQVRDWLEGKDNVGVLIAPNFAISAVLTMVFSKQAARFFESAEVIELHHPNKLDAPSGTAIHTAQGIAAARKEAGMDAQPDATEQALEGSRGASVDGIPVHAVRMSGMVAHEQVIFGTQGQTLTIKQDSYDRNSFAPGVLVGVRNIAQHPGLVVGLEHYLGL 248
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241
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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 5EES)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric Unit(hide GO term definitions)

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  5ees
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  DAPB_CORGL | P40110
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  1.17.1.8
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 Related Entries

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        DAPB_CORGL | P40110: 5eer

(-) Related Entries Specified in the PDB File

5eer