SMTL ID : 4fkz.1

Crystal structure of Bacillus subtilis UDP-GlcNAc 2-epimerase in complex with UDP-GlcNAc and UDP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

homo-dimer

Ligands

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

UD1.1: 25 residues within 4Å: Chain A: P.14, Q.41, H.42, R.43, Q.44, M.45, M.64, K.65, E.66, R.67, Q.68, L.70, I.73, T.99, T.100, P.133, E.134, H.207, R.208, R.209, H.240, L.241, N.242, P.243 Ligands: UDP.2 39 PLIP interactions: 39 interactions with chain A Hydrophobic interactions: A:H.42, A:L.70, A:P.133 Hydrogen bonds: A:Q.41, A:Q.41, A:R.43, A:Q.44, A:Q.44, A:M.45, A:K.65, A:E.66, A:R.67, A:Q.68, A:Q.68, A:T.100, A:T.100, A:E.134, A:E.134, A:R.208, A:R.208, A:R.209 Water bridges: A:Q.44, A:D.98, A:E.134, A:H.207, A:H.207, A:R.209, A:R.209, A:R.209, A:N.242, A:N.242 Salt bridges: A:H.42, A:H.42, A:H.42, A:H.207, A:R.209, A:R.209, A:H.240, A:H.240 UD1.3: 25 residues within 4Å: Chain B: P.14, Q.41, H.42, R.43, Q.44, M.45, M.64, K.65, E.66, R.67, Q.68, L.70, I.73, T.99, T.100, P.133, E.134, H.207, R.208, R.209, H.240, L.241, N.242, P.243 Ligands: UDP.4 38 PLIP interactions: 38 interactions with chain B Hydrophobic interactions: B:H.42, B:L.70, B:P.133 Hydrogen bonds: B:Q.41, B:Q.41, B:R.43, B:Q.44, B:Q.44, B:M.45, B:K.65, B:R.67, B:Q.68, B:Q.68, B:T.100, B:T.100, B:E.134, B:E.134, B:R.208, B:R.208, B:R.209 Water bridges: B:Q.44, B:D.98, B:E.134, B:H.207, B:H.207, B:R.209, B:R.209, B:R.209, B:N.242, B:N.242 Salt bridges: B:H.42, B:H.42, B:H.42, B:H.207, B:R.209, B:R.209, B:H.240, B:H.240

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

UDP.2: 16 residues within 4Å: Chain A: R.13, P.14, I.17, H.207, R.208, P.238, P.264, L.265, V.267, F.270, H.271, S.284, G.285, G.286, E.290 Ligands: UD1.1 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:R.13, A:L.265, A:L.265, A:S.284, A:G.285, A:G.286, A:E.290 Water bridges: A:R.13, A:R.208, A:V.267, A:S.284, A:E.290, A:E.290 Salt bridges: A:R.13, A:H.207, A:H.207, A:R.208 pi-Stacking: A:F.270 pi-Cation interactions: A:R.13 UDP.4: 16 residues within 4Å: Chain B: R.13, P.14, I.17, H.207, R.208, P.238, P.264, L.265, V.267, F.270, H.271, S.284, G.285, G.286, E.290 Ligands: UD1.3 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:R.13, B:L.265, B:L.265, B:S.284, B:G.285, B:G.286, B:E.290 Water bridges: B:V.267, B:S.284 Salt bridges: B:R.13, B:H.207, B:H.207, B:R.208 pi-Stacking: B:F.270 pi-Cation interactions: B:R.13

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, C.S. et al., Crystal structure of Bacillus subtilis UDP-GlcNAc 2-epimerase in complex with UDP-GlcNAc and UDP. To be Published

Release Date

2013-05-08

Peptides

UDP-N-acetylglucosamine 2-epimerase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

UDP-N-acetylglucosamine 2-epimerase