SMTL ID : 4or2.1

Human class C G protein-coupled metabotropic glutamate receptor 1 in complex with a negative allosteric modulator

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x FM9: 4-fluoro-N-methyl-N-{4-[6-(propan-2-ylamino)pyrimidin-4-yl]-1,3-thiazol-2-yl}benzamide(Non-covalent)

FM9.1: 21 residues within 4Å: Chain A: L.177, Q.189, R.190, V.193, G.194, S.197, T.277, V.282, P.285, L.286, N.289, T.323, I.326, W.327, F.330, Y.334, K.340, I.341, T.344, A.347, S.351 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.177, A:V.282, A:I.326, A:F.330, A:F.330, A:T.344, A:A.347 Hydrogen bonds: A:T.344 Halogen bonds: A:T.323 FM9.9: 20 residues within 4Å: Chain B: L.177, Q.189, V.193, S.197, T.277, V.282, P.285, L.286, N.289, I.293, T.323, I.326, W.327, F.330, Y.334, K.340, I.341, T.344, A.347, S.351 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:L.177, B:I.293, B:I.326, B:W.327, B:F.330, B:I.341, B:T.344, B:A.347 Hydrogen bonds: B:T.344, B:T.344 pi-Stacking: B:W.327 Halogen bonds: B:T.323

6 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 12 residues within 4Å: Chain A: W.117, I.126, C.130, I.133, L.134, F.175 Chain B: W.117, I.133, F.175 Ligands: CLR.3, CLR.4, CLR.14 10 PLIP interactions: 4 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:W.117, B:I.133, B:F.175, B:F.175, A:W.117, A:W.117, A:I.126, A:I.133, A:L.134, A:F.175 CLR.3: 10 residues within 4Å: Chain A: W.117, I.123, I.126, A.127, C.130, L.131 Chain B: P.59 Ligands: CLR.2, OLC.8, CLR.14 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.123, A:I.123, A:I.126, A:L.131 CLR.4: 11 residues within 4Å: Chain A: W.117, I.133, F.168, F.175 Chain B: W.117, I.126, C.130, F.175 Ligands: CLR.2, CLR.5, CLR.13 8 PLIP interactions: 5 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:W.117, B:W.117, B:W.117, B:I.126, B:F.175, A:W.117, A:I.133, A:F.168 CLR.5: 11 residues within 4Å: Chain A: F.168, V.172, F.175, T.176, A.179, K.180, T.182, T.184, L.188 Ligands: CLR.4, CLR.13 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.168, A:T.176, A:T.184, A:L.188 Hydrogen bonds: A:T.182 CLR.13: 10 residues within 4Å: Chain B: W.117, S.118, I.123, I.126, A.127, C.130, L.131, L.134 Ligands: CLR.4, CLR.5 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.123, B:I.123, B:I.126, B:L.131, B:L.134 CLR.14: 11 residues within 4Å: Chain A: L.134 Chain B: F.168, V.172, T.176, A.179, T.182, T.184, S.185, L.188 Ligands: CLR.2, CLR.3 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.168, B:T.176, B:A.179, B:L.188, A:L.134 Hydrogen bonds: B:T.182

1 x OLA: OLEIC ACID(Non-covalent)

OLA.6: 5 residues within 4Å: Chain A: I.333, S.337, Y.339, T.343, F.346 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.333, A:Y.339, A:Y.339, A:T.343, A:F.346

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

OLC.7: 6 residues within 4Å: Chain A: N.279, V.283, G.287, W.327, V.331, F.335 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.283, A:V.283, A:W.327, A:V.331, A:F.335 Hydrogen bonds: A:N.279 OLC.8: 4 residues within 4Å: Chain A: S.118, I.120, I.123 Ligands: CLR.3 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.123 OLC.12: 3 residues within 4Å: Chain B: N.279, L.280, V.283 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:V.283

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.10: 5 residues within 4Å: Chain B: N.338, Y.339, K.340, I.341, I.342 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.338, B:I.341, B:I.342 PO4.11: 2 residues within 4Å: Chain B: P.227, S.231 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:P.227, B:S.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, H. et al., Structure of a class C GPCR metabotropic glutamate receptor 1 bound to an allosteric modulator. Science (2014)

Release Date

2014-03-19

Peptides

Soluble cytochrome b562, Metabotropic glutamate receptor 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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Soluble cytochrome b562, Metabotropic glutamate receptor 1