SMTL ID : 8wow.1

Crystal structure of Arabidopsis thaliana UDP-glucose 4-epimerase 2 (AtUGE2) complexed with UDP, I160L/G233A mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x UDP: URIDINE-5'-DIPHOSPHATE(Non-covalent)

UDP.1: 15 residues within 4Å: Chain A: V.111, N.203, N.222, N.223, L.224, L.239, T.240, V.241, F.242, A.253, R.255, Y.257, V.294, R.317, D.320 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.242 Hydrogen bonds: A:N.203, A:N.223, A:L.224, A:T.240, A:F.242, A:R.255, A:D.320 Salt bridges: A:R.317, A:R.317 UDP.3: 16 residues within 4Å: Chain B: V.111, N.203, N.222, N.223, L.224, Y.227, L.239, T.240, V.241, F.242, A.253, R.255, Y.257, V.294, R.317, D.320 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:F.242 Hydrogen bonds: B:N.203, B:N.203, B:N.222, B:L.224, B:T.240, B:F.242, B:R.317, B:D.320 Water bridges: B:M.225, B:R.317, B:R.317, B:R.317 Salt bridges: B:R.255, B:R.317, B:R.317

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

NAD.2: 28 residues within 4Å: Chain A: G.29, A.31, G.32, Y.33, I.34, D.53, N.54, Y.55, D.56, N.57, S.58, V.82, D.83, L.84, F.105, A.106, G.107, K.109, N.124, S.147, S.148, S.149, Y.173, K.177, Y.201, F.202, P.204, N.223 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:Y.201, A:P.204 Hydrogen bonds: A:G.29, A:Y.33, A:I.34, A:N.54, A:N.54, A:Y.55, A:D.56, A:N.57, A:N.57, A:S.58, A:S.58, A:L.84, A:F.105, A:G.107, A:L.108, A:N.124, A:N.124, A:S.147, A:K.177 Salt bridges: A:K.109, A:K.109 NAD.4: 29 residues within 4Å: Chain B: G.29, A.31, G.32, Y.33, I.34, D.53, N.54, Y.55, D.56, N.57, S.58, V.82, D.83, L.84, F.105, A.106, G.107, L.108, K.109, N.124, S.147, S.148, S.149, Y.173, K.177, Y.201, F.202, P.204, N.223 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:Y.201 Hydrogen bonds: B:Y.33, B:I.34, B:N.54, B:N.54, B:Y.55, B:D.56, B:N.57, B:N.57, B:S.58, B:L.84, B:F.105, B:G.107, B:L.108, B:K.109, B:K.109, B:N.124, B:N.124, B:S.147, B:K.177 Salt bridges: B:K.109, B:K.109

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

SO4.5: 2 residues within 4Å: Chain B: N.54, D.83 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.54, B:D.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Umezawa, A. et al., Cytosolic UDP-L-arabinose synthesis by bifunctional UDP-glucose 4-epimerases in Arabidopsis. Plant J. (2024)

Release Date

2024-05-15

Peptides

UDP-glucose 4-epimerase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

UDP-glucose 4-epimerase 2