SMTL ID : 8b2c.1

Crystal structure of type I dehydroquinase from Salmonella typhi inhibited by an epoxide derivative

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x OVU: (1~{S},2~{R},4~{R},5~{S},6~{S})-2,4,5-trihydroxy-7-oxabicyclo[4.1.0]heptane-2-carboxylic acid(Non-covalent)

OVU.1: 14 residues within 4Å: Chain A: S.21, E.46, R.48, R.82, H.143, F.145, K.170, M.203, M.205, R.213, F.225, S.232, A.233, Q.236 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:A.233 Hydrogen bonds: A:S.21, A:E.46, A:R.48, A:R.82, A:K.170, A:S.232, A:Q.236 Water bridges: A:K.170 Salt bridges: A:R.213

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.2: 8 residues within 4Å: Chain A: Q.147, T.148, P.149, S.150, A.151, Q.176, D.180, T.183 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:T.148, A:A.151, A:D.180 Water bridges: A:E.152, A:T.183 Salt bridges: A:D.180, A:D.180

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 1 residues within 4Å: Chain A: K.125 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.125 SO4.4: 4 residues within 4Å: Chain A: M.72, P.73, D.74, I.75 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.74, A:I.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rodriguez, A. et al., Quinate-based ligands for irreversible inactivation of the bacterial virulence factor DHQ1 enzyme-A molecular insight. Front Mol Biosci (2023)

Release Date

2023-02-15

Peptides

3-dehydroquinate dehydratase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

3-dehydroquinate dehydratase

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