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

Crystal structure of a nucleotide sugar transporter

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.22 Å

Oligo State

homo-dimer

Ligands

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

OLC.1: 7 residues within 4Å: Chain A: L.97, Y.100, T.101, F.186, W.187, T.190, C.234 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.187, A:T.190 OLC.2: 16 residues within 4Å: Chain A: F.117, L.120, Y.127, V.137, T.138, S.139, L.142, L.146 Chain B: M.140, L.147, F.306, L.310, I.314, L.317, I.321, K.328 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.306, B:I.314, B:L.317, A:L.142 Hydrogen bonds: B:K.328, B:K.328, B:K.328, A:Y.127 OLC.3: 4 residues within 4Å: Chain A: F.41, F.299, F.300 Ligands: OLC.4 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.299 OLC.4: 10 residues within 4Å: Chain A: I.33, V.37, K.40, F.41, P.291, I.292, S.295, G.296, F.300 Ligands: OLC.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.33, A:V.37, A:F.300, A:F.300 OLC.5: 21 residues within 4Å: Chain A: M.140, L.147, L.150, V.154, W.157, L.307, L.310, I.314, L.317, I.321 Chain B: I.116, F.117, L.120, I.123, Y.127, V.137, S.139, L.142, L.146, V.149, V.153 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.150, A:I.314, A:L.317, B:I.116, B:L.142

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
E

Membrane

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

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