SMTL ID : 4h3d.1 (1 other biounit)

1.95 Angstrom Crystal Structure of of Type I 3-Dehydroquinate Dehydratase (aroD) from Clostridium difficile with Covalent Modified Comenic Acid.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.1: 4 residues within 4Å: Chain A: V.88, V.89, G.91, F.149 1 PLIP interactions: 1 interactions with chain A Water bridges: A:G.91

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 4 residues within 4Å: Chain A: I.27, R.52, Q.240 Ligands: SHL.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.52 Water bridges: A:Q.240 PEG.4: 5 residues within 4Å: Chain B: V.88, V.89, G.91, F.149 Ligands: ACT.6 No protein-ligand interaction detected (PLIP)

2 x SHL: 5-hydroxy-6-methyl-4-oxo-4H-pyran-2-carboxylic acid(Covalent)

SHL.3: 8 residues within 4Å: Chain A: R.86, H.147, K.174, M.207, R.217, F.229, Q.240 Ligands: PEG.2 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:K.174, A:F.229 Hydrogen bonds: A:R.86, A:K.174, A:Q.240 Water bridges: A:R.217 Salt bridges: A:R.217 SHL.5: 7 residues within 4Å: Chain B: R.86, H.147, K.174, M.207, R.217, F.229, Q.240 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:K.174, B:F.229 Hydrogen bonds: B:R.86, B:K.174, B:K.174, B:Q.240 Salt bridges: B:R.217 pi-Stacking: B:F.229

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 4 residues within 4Å: Chain B: D.148, F.149, N.150 Ligands: PEG.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.148, B:F.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., 1.95 Angstrom Crystal Structure of of Type I 3-Dehydroquinate Dehydratase (aroD) from Clostridium difficile with Covalent Modified Comenic Acid. TO BE PUBLISHED

Release Date

2012-09-26

Peptides

3-dehydroquinate dehydratase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3-dehydroquinate dehydratase

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