SMTL ID : 6zho.1

Crystal structure of a CGRP receptor ectodomain heterodimer with bound high affinity inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 15 residues within 4Å: Chain A: D.17, K.18, W.65, A.66, D.68, R.69, E.114, E.156, P.157, Y.158, F.159, W.233, M.333, W.343, R.347 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.65, A:R.69, A:R.69, A:E.156, A:Y.158, A:R.347

1 x QLQ: ~{N}-[(2~{R})-3-(7-methyl-2~{H}-indazol-5-yl)-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-3-piperidin-4-yl-1-(4-pyridin-4-ylpiperazin-1-yl)propan-2-yl]amino]propan-2-yl]-2-oxidanylidene-spiro[1~{H}-pyrido[2,3-d][1,3]oxazine-4,4'-piperidine]-1'-carboxamide(Non-covalent)

QLQ.2: 18 residues within 4Å: Chain A: A.422, D.423, W.426, W.436, P.437, R.482, I.485, D.514, G.515, W.516, F.536, D.538, F.539, R.563, W.565, T.566, Y.568, N.572 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:A.422, A:W.426, A:W.426, A:W.516, A:W.565, A:W.565 Hydrogen bonds: A:G.515, A:T.566, A:T.566 Water bridges: A:D.423, A:R.482, A:D.538, A:R.563, A:Y.568 pi-Stacking: A:W.516, A:F.536

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 6 residues within 4Å: Chain A: V.199, I.202, K.203, K.205, A.354, G.356 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.205 PG4.4: 13 residues within 4Å: Chain A: A.54, A.55, T.56, G.57, S.76, G.77, A.272, R.389, F.444, A.447, G.450, R.451, R.454 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.450, A:R.451 Water bridges: A:A.272, A:R.389

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bucknell, S.J. et al., Structure-Based Drug Discovery ofN-((R)-3-(7-Methyl-1H-indazol-5-yl)-1-oxo-1-(((S)-1-oxo-3-(piperidin-4-yl)-1-(4-(pyridin-4-yl)piperazin-1-yl)propan-2-yl)amino)propan-2-yl)-2'-oxo-1',2'-dihydrospiro[piperidine-4,4'-pyrido[2,3-d][1,3]oxazine]-1-carboxamide (HTL22562): A Calcitonin Gene-Related Peptide Receptor Antagonist for Acute Treatment of Migraine. J.Med.Chem. (2020)

Release Date

2020-07-15

Peptides

Maltose/maltodextrin-binding periplasmic protein,Receptor activity-modifying protein 1,Calcitonin gene-related peptide type 1 receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Maltose/maltodextrin-binding periplasmic protein,Receptor activity-modifying protein 1,Calcitonin gene-related peptide type 1 receptor

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