SMTL ID : 5ogk.1 (3 other biounits)

Crystal structure of a nucleotide sugar transporter with bound nucleotide sugar.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.60 Å

Oligo State

homo-dimer

Ligands

1 x GDD: GUANOSINE-5'-DIPHOSPHATE-ALPHA-D-MANNOSE(Non-covalent)

GDD.1: 18 residues within 4Å: Chain A: Y.28, S.32, M.35, M.98, V.111, Y.114, T.115, F.198, M.202, N.220, N.221, I.265, S.266, S.269, Y.281, G.285, A.286, K.289 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Y.28, A:Y.114, A:N.220, A:N.221, A:S.269, A:Y.281, A:A.286 Salt bridges: A:K.289, A:K.289

2 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)

OLC.2: 16 residues within 4Å: Chain A: M.140, L.147, V.154, L.310, I.314, L.317, I.321, V.324, K.328 Chain B: I.116, L.120, I.123, Y.127, L.142, V.149, V.153 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.310, A:I.314 OLC.3: 13 residues within 4Å: Chain A: F.117, L.120, I.123, Y.127, V.137, S.139, L.142, L.146, Y.185 Chain B: M.140, F.306, L.310, L.317 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:F.117, A:L.120, B:F.306, B:L.310 Hydrogen bonds: A:Y.127, A:S.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Parker, J.L. et al., Structural basis of nucleotide sugar transport across the Golgi membrane. Nature (2017)

Release Date

2017-11-22

Peptides

GDP-mannose transporter 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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GDP-mannose transporter 1

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