SMTL ID : 6xbo.1

X-ray crystal structure of the mouse CMP-Sialic acid transporter in complex with 5-methyl CMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x 5MC: 5-METHYLCYTIDINE-5'-MONOPHOSPHATE(Non-covalent)

5MC.1: 15 residues within 4Å: Chain A: K.55, Y.98, Q.101, N.102, Y.121, K.124, S.188, F.195, N.210, M.213, Y.214, G.257, T.260, S.261, K.272 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:Y.98, A:F.195 Hydrogen bonds: A:Q.101, A:N.102, A:N.102, A:S.188, A:S.188, A:N.210, A:Y.214, A:T.260 Water bridges: A:K.55, A:K.55, A:K.55, A:K.55, A:K.124, A:K.124, A:K.272 Salt bridges: A:K.124, A:K.272

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

OLC.2: 5 residues within 4Å: Chain A: I.295, T.296, L.297, A.300 Ligands: OLC.7 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.300 OLC.3: 7 residues within 4Å: Chain A: T.45, A.99, N.103, M.104, V.220, S.228 Ligands: OLC.10 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:T.45, A:A.99, A:N.103, A:V.220 Water bridges: A:S.44, A:S.44, A:S.44, A:S.44, A:D.229 OLC.4: 8 residues within 4Å: Chain A: L.17, M.271, F.274, S.275, A.278, A.279, L.282, I.310 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.17, A:A.278, A:L.282 OLC.5: 6 residues within 4Å: Chain A: A.89, K.90, S.92, V.93, L.96, Y.194 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.93, A:L.96 Hydrogen bonds: A:S.92, A:Y.194 OLC.6: 4 residues within 4Å: Chain A: G.153, T.156, L.157, W.160 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.160 OLC.7: 4 residues within 4Å: Chain A: L.293, Q.294, I.295 Ligands: OLC.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.295, A:I.295 OLC.8: 5 residues within 4Å: Chain A: P.85, K.86, L.88, A.89, S.216 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.85, A:L.88 Hydrogen bonds: A:K.86 OLC.9: 5 residues within 4Å: Chain A: N.173, L.175, L.176, G.179 Ligands: OLC.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.173 OLC.10: 7 residues within 4Å: Chain A: M.104, L.107, L.176, G.179, I.183 Ligands: OLC.3, OLC.9 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.107, A:L.176 OLC.11: 6 residues within 4Å: Chain A: C.131, L.134, M.135, F.190, K.197 Ligands: OLC.12 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.134, A:L.134 Hydrogen bonds: A:K.197 OLC.12: 3 residues within 4Å: Chain A: M.135, K.197 Ligands: OLC.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.197, A:K.197 Water bridges: A:Y.194 OLC.13: 2 residues within 4Å: Chain A: I.310, Y.311 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.310 OLC.14: 5 residues within 4Å: Chain A: K.74, L.77, S.78, V.81, L.82 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.81, A:L.82 Water bridges: A:K.74, A:S.78, A:S.78

2 x 2PE: NONAETHYLENE GLYCOL(Non-covalent)

2PE.15: 7 residues within 4Å: Chain A: L.199, K.200, S.202, D.203, T.204, K.265, Y.266 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.265 2PE.16: 1 residues within 4Å: Chain A: K.200 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ahuja, S. et al., Inhibition of CMP-sialic acid transport by endogenous 5-methyl CMP. Plos One (2021)

Release Date

2021-06-09

Peptides

CMP-sialic acid transporter: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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CMP-sialic acid transporter

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