SMTL ID : 4pxz.1

Crystal structure of P2Y12 receptor in complex with 2MeSADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x 6AD: 2-(methylsulfanyl)adenosine 5'-(trihydrogen diphosphate)(Non-covalent)

6AD.1: 23 residues within 4Å: Chain A: R.102, C.106, S.110, V.111, Y.114, F.115, Y.118, M.161, L.164, S.165, N.168, T.172, K.183, C.184, K.188, H.196, V.199, N.200, C.203, R.371, Y.374, Q.378, K.395 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:C.106, A:T.172, A:C.184, A:K.188, A:K.188, A:N.200, A:N.200, A:Y.374, A:Q.378, A:Q.378 Water bridges: A:R.102, A:R.102, A:S.185, A:S.185, A:H.196, A:R.371, A:Y.374, A:Y.374 Salt bridges: A:R.102, A:H.196, A:R.371, A:K.395, A:K.395 pi-Stacking: A:Y.114

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 8 residues within 4Å: Chain A: S.64, I.70, K.73, N.74, I.77, K.151, W.158, F.162 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:K.73, A:K.73, A:I.77, A:I.77, A:W.158, A:W.158, A:F.162, A:F.162 Hydrogen bonds: A:S.64

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

OLC.3: 5 residues within 4Å: Chain A: Q.107, L.166, M.169, I.170, N.173 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.166, A:M.169, A:I.170 Hydrogen bonds: A:Q.107 OLC.4: 6 residues within 4Å: Chain A: T.386, T.390, Y.393, V.394, S.397 Ligands: OLC.5 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.394 Hydrogen bonds: A:T.386 OLC.5: 6 residues within 4Å: Chain A: D.29, I.32, L.36, Y.393, S.397 Ligands: OLC.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.36 Water bridges: A:D.29, A:T.33

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 2 residues within 4Å: Chain A: Q.273, R.294 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, J. et al., Agonist-bound structure of the human P2Y12 receptor. Nature (2014)

Release Date

2014-04-30

Peptides

P2Y purinoceptor 12, Soluble cytochrome b562: 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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P2Y purinoceptor 12, Soluble cytochrome b562

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