SMTL ID : 8do5.1

Crystal structure of NahE in complex with intermediate (R)-4-hydroxy-4-(2-hydroxyphenyl)-2-iminobutanoate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-tetramer

Ligands

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.1: 7 residues within 4Å: Chain A: A.156, D.164, F.165, R.167, Y.184, L.185, G.186 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.167 pi-Cation interactions: A:Y.184 DMS.3: 5 residues within 4Å: Chain B: A.156, F.165, R.167, Y.184, L.185 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.167 pi-Cation interactions: B:Y.184 DMS.5: 7 residues within 4Å: Chain C: A.156, D.164, F.165, R.167, Y.184, L.185, G.186 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.167 pi-Cation interactions: C:Y.184 DMS.7: 5 residues within 4Å: Chain D: A.156, F.165, R.167, Y.184, L.185 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:R.167 pi-Cation interactions: D:Y.184

4 x KRN: (4R)-4-hydroxy-4-(2-hydroxyphenyl)butanoic acid(Covalent)

KRN.2: 11 residues within 4Å: Chain A: G.64, T.65, F.66, M.122, Y.155, N.157, K.183, W.224, F.277, N.281, E.285 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.155, A:K.183, A:W.224, A:F.277 Hydrogen bonds: A:T.65, A:F.66, A:Y.155, A:Y.155, A:N.157, A:N.281 Salt bridges: A:K.183 pi-Stacking: A:W.224 KRN.4: 14 residues within 4Å: Chain B: G.64, T.65, F.66, M.122, Y.155, N.157, K.183, L.185, W.224, F.269, F.274, F.277, N.281, E.285 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:F.66, B:Y.155, B:K.183, B:L.185, B:W.224, B:F.269, B:F.274, B:F.277 Hydrogen bonds: B:T.65, B:F.66, B:Y.155, B:Y.155, B:N.157, B:N.281, B:N.281, B:E.285 Water bridges: B:G.67 Salt bridges: B:K.183 pi-Stacking: B:W.224 KRN.6: 11 residues within 4Å: Chain C: G.64, T.65, F.66, M.122, Y.155, N.157, K.183, W.224, F.277, N.281, E.285 13 PLIP interactions: 13 interactions with chain C Hydrophobic interactions: C:Y.155, C:K.183, C:W.224, C:F.277 Hydrogen bonds: C:T.65, C:F.66, C:Y.155, C:Y.155, C:N.157, C:N.281, C:E.285 Salt bridges: C:K.183 pi-Stacking: C:W.224 KRN.8: 14 residues within 4Å: Chain D: G.64, T.65, F.66, M.122, Y.155, N.157, K.183, L.185, W.224, F.269, F.274, F.277, N.281, E.285 19 PLIP interactions: 19 interactions with chain D Hydrophobic interactions: D:F.66, D:Y.155, D:K.183, D:L.185, D:W.224, D:F.269, D:F.274, D:F.277 Hydrogen bonds: D:T.65, D:T.65, D:F.66, D:Y.155, D:Y.155, D:N.157, D:N.281, D:N.281 Water bridges: D:G.67 Salt bridges: D:K.183 pi-Stacking: D:W.224

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lancaster, E.B. et al., A mutagenic analysis of NahE, a hydratase-aldolase in the naphthalene degradative pathway. Arch.Biochem.Biophys. (2023)

Release Date

2022-12-28

Peptides

Trans-ohydrobenzylidenepyruvate hydratase aldolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Trans-ohydrobenzylidenepyruvate hydratase aldolase

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