SMTL ID : 5t1a.1

Structure of CC Chemokine Receptor 2 with Orthosteric and Allosteric Antagonists

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.81 Å

Oligo State

monomer

Ligands

1 x 73R: (3S)-1-{(1S,2R,4R)-4-[methyl(propan-2-yl)amino]-2-propylcyclohexyl}-3-{[6-(trifluoromethyl)quinazolin-4-yl]amino}pyrrolidin-2-one(Non-covalent)

73R.1: 15 residues within 4Å: Chain A: V.47, G.51, L.54, L.55, Y.59, W.108, T.127, Y.130, T.189, C.200, Q.459, V.460, E.462, T.463, M.466 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:V.47, A:L.55, A:L.55, A:W.108, A:W.108, A:T.127, A:Y.130, A:Y.130, A:T.189 Hydrogen bonds: A:Y.59, A:Q.459, A:T.463 Salt bridges: A:E.462

1 x VT5: (2~{R})-1-(4-chloranyl-2-fluoranyl-phenyl)-2-cyclohexyl-3-ethanoyl-4-oxidanyl-2~{H}-pyrrol-5-one(Non-covalent)

VT5.2: 14 residues within 4Å: Chain A: V.73, L.77, T.87, L.91, R.148, R.408, A.412, V.415, Y.476, G.480, E.481, K.482, F.483, Y.486 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:R.148, A:A.412, A:V.415, A:V.415, A:K.482, A:F.483, A:Y.486 Hydrogen bonds: A:E.481, A:K.482, A:F.483 pi-Stacking: A:Y.476

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 4 residues within 4Å: Chain A: K.81, K.482, R.485, Y.486 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.486 Water bridges: A:R.408 Salt bridges: A:K.81, A:K.482, A:R.485 SO4.4: 4 residues within 4Å: Chain A: R.250, P.406, S.407, R.408 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.407, A:R.408, A:E.409 Salt bridges: A:R.250, A:R.408 SO4.5: 6 residues within 4Å: Chain A: G.355, F.356, T.357, N.358, S.359, N.374 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.357, A:N.358, A:N.358, A:S.359, A:N.374 SO4.6: 5 residues within 4Å: Chain A: Q.383, T.384, P.385, N.386, R.387 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.386, A:N.386, A:R.387

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

OLC.7: 7 residues within 4Å: Chain A: Y.232, R.242, K.410, R.414, F.417, T.418, I.421 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:R.414, A:F.417, A:F.417, A:T.418, A:I.421 Hydrogen bonds: A:R.242, A:R.242, A:R.414 Salt bridges: A:R.242, A:R.414

1 x ZN: ZINC ION(Non-covalent)

ZN.8: 4 residues within 4Å: Chain A: I.152, H.154, E.247, E.409 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.154, A:E.247, A:E.409, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheng, Y. et al., Structure of CC chemokine receptor 2 with orthosteric and allosteric antagonists. Nature (2016)

Release Date

2016-12-14

Peptides

Chimera protein of CC chemokine receptor type 2 isoform B and T4-lysozyme,Lysozyme: 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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Chimera protein of CC chemokine receptor type 2 isoform B and T4-lysozyme,Lysozyme