SMTL ID : 2yk7.1

Structure of Neisseria LOS-specific sialyltransferase (NST), in complex with CMP-3F-Neu5Ac.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.18 Å

Oligo State

homo-dimer

Ligands

2 x CSF: CYTIDINE-5'-MONOPHOSPHATE-3-FLUORO-N-ACETYL-NEURAMINIC ACID(Non-covalent)

CSF.1: 18 residues within 4Å: Chain A: L.206, G.207, A.230, P.231, H.232, P.233, R.234, V.250, I.251, E.252, S.274, G.275, A.276 Chain B: T.9, L.11, N.69, F.70, E.76 14 PLIP interactions: 12 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.207, A:G.207, A:R.234, A:I.251, A:E.252, A:E.252, A:G.275, B:T.9, B:N.69 Water bridges: A:T.279, A:T.279 Salt bridges: A:H.232, A:H.232 Halogen bonds: A:R.234 CSF.4: 18 residues within 4Å: Chain A: T.9, L.11, N.69, F.70, E.76 Chain B: L.206, G.207, A.230, P.231, H.232, P.233, R.234, V.250, I.251, E.252, S.274, G.275, A.276 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:G.207, B:G.207, B:R.234, B:I.251, B:E.252, B:E.252, B:G.275, A:T.9, A:T.9, A:N.69 Salt bridges: B:H.232, B:H.232 Halogen bonds: B:R.234

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.2: 12 residues within 4Å: Chain A: Y.8, M.33, N.65, S.67, A.102, T.106 Chain B: L.95, E.96, V.98, S.99, I.100, D.150 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.99, A:S.67 Water bridges: A:Y.8 1PE.5: 12 residues within 4Å: Chain A: L.95, E.96, V.98, S.99, I.100, D.150 Chain B: Y.8, M.33, N.65, S.67, A.102, T.106 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.99, B:S.67 Water bridges: B:N.65

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 6 residues within 4Å: Chain A: L.11, Q.12, V.15 Chain B: D.116, G.118, I.166 No protein-ligand interaction detected (PLIP) EDO.6: 6 residues within 4Å: Chain A: D.116, G.118, I.166 Chain B: L.11, Q.12, V.15 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lin, L.Y.C. et al., Structure and Mechanism of the Lipooligosaccharide Sialyltransferase from Neisseria Meningitidis. J.Biol.Chem. (2011)

Release Date

2011-08-31

Peptides

CMP-N-ACETYLNEURAMINATE-BETA-GALACTOSAMIDE-ALPHA-2,3-SIALYLTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

CMP-N-ACETYLNEURAMINATE-BETA-GALACTOSAMIDE-ALPHA-2,3-SIALYLTRANSFERASE