SMTL ID : 6yvr.1

Crystal structure of the neurotensin receptor 1 in complex with the peptide full agonist NTS8-13

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.46 Å

Oligo State

homo-dimer

Ligands

2 x GLY- GLY- ARG- ARG- PRO- TYR- ILE- LEU: neurotensin NTS8-13 (full agonist)(Non-covalent)

GLY-GLY-ARG-ARG-PRO-TYR-ILE-LEU.1: 34 residues within 4Å: Chain A: D.9, L.10, D.11, V.12, N.13, F.83, H.87, H.88, Y.101, M.159, M.163, L.168, V.179, C.180, T.181, P.182, L.189, I.193, R.264, R.265, F.268, V.269, I.271, S.272, D.273, E.274, W.276, T.277, T.278, F.281, D.282, Y.284, H.285, Y.288 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:L.10, A:F.83, A:L.168, A:V.179, A:I.193, A:F.268, A:W.276, A:F.281, A:Y.284, A:Y.284, A:Y.288 Hydrogen bonds: A:D.11, A:D.11, A:N.13, A:H.87, A:Y.101, A:Y.101, A:Y.101, A:F.268, A:F.268, A:D.273, A:W.276, A:W.276 Salt bridges: A:R.264, A:D.273 pi-Cation interactions: A:F.281 GLY-GLY-ARG-ARG-PRO-TYR-ILE-LEU.2: 34 residues within 4Å: Chain B: D.9, L.10, D.11, V.12, N.13, F.83, H.87, H.88, Y.101, M.159, M.163, L.168, V.179, C.180, T.181, P.182, L.189, I.193, R.264, R.265, F.268, V.269, I.271, S.272, D.273, E.274, W.276, T.277, T.278, F.281, D.282, Y.284, H.285, Y.288 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:L.10, B:F.83, B:L.168, B:V.179, B:I.193, B:F.268, B:W.276, B:W.276, B:F.281, B:Y.284, B:Y.284, B:Y.288 Hydrogen bonds: B:D.11, B:H.87, B:Y.101, B:Y.101, B:Y.101, B:F.268, B:I.271, B:D.273, B:W.276, B:W.276 Salt bridges: B:R.264, B:D.273 pi-Cation interactions: B:F.281

8 x BNG: nonyl beta-D-glucopyranoside(Non-covalent)

BNG.3: 10 residues within 4Å: Chain A: S.63, L.66, L.70, F.74, L.103, K.142, I.145, S.146, W.149 Ligands: BNG.4 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.70, A:L.70 Hydrogen bonds: A:S.63, A:S.146 BNG.4: 10 residues within 4Å: Chain A: L.70, F.102, L.103, A.106, S.146, W.149, L.150, A.153 Chain B: V.191 Ligands: BNG.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.103, A:A.106, A:W.149, A:A.153 Hydrogen bonds: A:S.146 BNG.5: 11 residues within 4Å: Chain A: F.74, A.75, V.78, F.92, G.93, D.94, A.95, G.96, G.99, Y.100, L.103 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.78, A:F.92 Hydrogen bonds: A:D.94, A:A.95 BNG.6: 11 residues within 4Å: Chain B: S.63, L.66, L.70, F.74, L.103, K.142, I.145, S.146, W.149 Ligands: BNG.7, BNG.8 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.70, B:F.74 Hydrogen bonds: B:S.63, B:S.146 Water bridges: B:S.63 BNG.7: 11 residues within 4Å: Chain A: V.191 Chain B: L.70, F.102, L.103, A.106, C.107, S.146, W.149, L.150, A.153 Ligands: BNG.6 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.103, B:A.106, B:W.149 Hydrogen bonds: B:S.146 Water bridges: B:S.146, B:S.146 BNG.8: 11 residues within 4Å: Chain B: F.74, V.78, F.92, G.93, D.94, A.95, G.96, G.99, Y.100, L.103 Ligands: BNG.6 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.103 Hydrogen bonds: B:D.94, B:A.95 BNG.9: 14 residues within 4Å: Chain A: K.448, F.449 Chain B: Q.51, L.53, Q.54, V.57, L.122, E.233, G.235, R.236, A.239, L.240, G.243 Ligands: BNG.10 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.53, B:A.239 Hydrogen bonds: B:E.233, B:R.236 BNG.10: 5 residues within 4Å: Chain B: K.48, S.49, L.50, Q.51 Ligands: BNG.9 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Deluigi, M. et al., Complexes of the neurotensin receptor 1 with small-molecule ligands reveal structural determinants of full, partial, and inverse agonism. Sci Adv (2021)

Release Date

2021-02-10

Peptides

Neurotensin receptor type 1,Neurotensin receptor type 1,DARPin crystallisation chaperone: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

Neurotensin receptor type 1,Neurotensin receptor type 1,DARPin crystallisation chaperone

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