SMTL ID : 7xpq.1

Crystal Structure of UDP-Glc/GlcNAc 4-Epimerase with NAD/UDP-GlcNAc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

2 x UD1: URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE(Non-covalent)

UD1.1: 19 residues within 4Å: Chain A: V.95, S.133, T.135, Y.157, N.187, N.206, N.207, L.208, L.223, T.224, V.225, Y.226, G.237, R.239, Y.241, V.280, R.303, D.306 Ligands: NAD.2 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:S.133, A:N.187, A:N.187, A:N.207, A:L.208, A:T.224, A:Y.226, A:Y.226, A:G.237 Water bridges: A:Y.157, A:N.207, A:M.209, A:R.239, A:R.239, A:R.239, A:R.239 Salt bridges: A:R.239, A:R.303, A:R.303 pi-Stacking: A:Y.226 UD1.3: 18 residues within 4Å: Chain B: V.95, S.133, Y.157, F.186, N.187, P.188, N.207, L.208, L.223, T.224, V.225, Y.226, G.237, R.239, Y.241, V.280, R.303, D.306 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:V.95 Hydrogen bonds: B:S.133, B:N.187, B:N.187, B:L.208, B:T.224, B:Y.226, B:Y.226, B:Y.241, B:R.303 Water bridges: B:R.239, B:R.239, B:R.239, B:D.306 Salt bridges: B:R.239, B:R.303

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.2: 28 residues within 4Å: Chain A: G.13, G.16, Y.17, I.18, G.19, D.37, N.38, L.39, D.40, N.41, A.42, V.66, D.67, L.68, F.89, A.90, G.91, K.93, N.108, S.131, S.132, S.133, Y.157, K.161, Y.185, F.186, P.188 Ligands: UD1.1 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:I.18, A:Y.185 Hydrogen bonds: A:Y.17, A:I.18, A:G.19, A:N.38, A:N.38, A:L.39, A:D.40, A:N.41, A:N.41, A:L.68, A:F.89, A:G.91, A:K.93, A:N.108, A:N.108, A:S.131, A:K.161 Water bridges: A:G.16, A:G.91, A:L.92 Salt bridges: A:K.93, A:K.93 NAD.4: 26 residues within 4Å: Chain B: G.13, A.15, G.16, Y.17, I.18, G.19, V.36, D.37, N.38, L.39, D.40, N.41, A.42, V.66, D.67, L.68, F.89, A.90, G.91, K.93, N.108, S.131, S.132, Y.157, K.161, Y.185 23 PLIP interactions: 23 interactions with chain B Hydrogen bonds: B:G.13, B:Y.17, B:I.18, B:G.19, B:N.38, B:N.38, B:L.39, B:D.40, B:N.41, B:A.42, B:L.68, B:F.89, B:G.91, B:N.108, B:N.108, B:S.131, B:Y.157, B:Y.157, B:K.161 Water bridges: B:G.16, B:G.16 Salt bridges: B:K.93, B:K.93

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, Y. et al., A maize epimerase modulates cell wall synthesis and glycosylation during stomatal morphogenesis. Nat Commun (2023)

Release Date

2023-05-17

Peptides

UDP-glucose 4-epimerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

UDP-glucose 4-epimerase

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