SMTL ID : 4b8w.1

Crystal structure of human GDP-L-fucose synthase with bound NADP and GDP, tetragonal crystal form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

homo-dimer

Ligands

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 26 residues within 4Å: Chain A: G.13, G.14, S.15, G.16, L.17, V.18, S.41, S.42, A.45, D.46, L.47, L.68, A.69, A.70, V.72, M.92, C.111, L.112, Y.142, K.146, P.169, T.170, N.171, V.172, H.185, R.319 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:P.169, A:V.172 Hydrogen bonds: A:G.13, A:S.15, A:S.15, A:G.16, A:L.17, A:V.18, A:S.42, A:D.46, A:L.47, A:L.68, A:A.70, A:K.146, A:V.172, A:V.172 Salt bridges: A:R.319 NAP.3: 23 residues within 4Å: Chain B: G.13, G.14, S.15, G.16, L.17, V.18, S.41, S.42, A.45, D.46, L.47, L.68, A.69, A.70, C.111, L.112, S.113, Y.142, K.146, P.169, T.170, V.172, H.185 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:V.172 Hydrogen bonds: B:G.13, B:S.15, B:S.15, B:S.15, B:L.17, B:V.18, B:S.42, B:D.46, B:L.47, B:L.68, B:A.70, B:Y.142, B:Y.142, B:K.146, B:V.172, B:V.172

2 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.2: 17 residues within 4Å: Chain A: G.74, L.75, F.76, N.171, G.184, H.185, V.186, L.190, V.206, W.207, G.208, P.212, R.214, I.251, S.275, D.276, K.281 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:L.75, A:N.171, A:G.184, A:V.186, A:W.207, A:R.214, A:S.275 Water bridges: A:N.78, A:N.78 Salt bridges: A:H.185, A:R.214, A:K.281 pi-Stacking: A:F.76 GDP.4: 12 residues within 4Å: Chain B: N.171, G.184, H.185, V.186, V.206, W.207, P.212, R.214, I.251, S.275, D.276, K.281 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:N.171, B:G.184, B:V.186, B:W.207, B:S.275 Salt bridges: B:H.185, B:R.214, B:K.281 pi-Stacking: B:W.207

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vollmar, M. et al., Crystal Structure of Human Gdp-L-Fucose Synthase with Bound Nadp and Gdp, Tetragonal Crystal Form. To be Published

Release Date

2012-11-21

Peptides

GDP-L-FUCOSE SYNTHASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GDP-L-FUCOSE SYNTHASE