SMTL ID : 5lwe.2 (1 other biounit)

Crystal structure of the human CC chemokine receptor type 9 (CCR9) in complex with vercirnon

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

monomer

Ligands

1 x 79K: Vercirnon(Non-covalent)

79K.1: 21 residues within 4Å: Chain A: V.47, V.50, Y.51, R.56, T.59, T.61, D.62, L.65, I.118, R.122, A.230, A.233, T.234, V.237, Y.295, G.299, E.300, R.301, F.302, D.305 Ligands: MLI.15 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:V.47, A:V.50, A:Y.51, A:T.61, A:L.65, A:L.65, A:V.237, A:Y.295, A:Y.295, A:R.301, A:F.302 Hydrogen bonds: A:T.59, A:T.234, A:R.301, A:F.302 Water bridges: A:E.300

13 x OLA: OLEIC ACID(Non-covalent)

OLA.2: 4 residues within 4Å: Chain A: K.232, F.286, L.294, F.297 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.286, A:L.294 Salt bridges: A:K.232 OLA.3: 8 residues within 4Å: Chain A: H.228, K.232, T.236, T.239, V.240, L.243, S.244 Ligands: OLA.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.239, A:V.240, A:L.243, A:L.243 Salt bridges: A:K.232 OLA.4: 7 residues within 4Å: Chain A: Y.212, L.219, H.228, I.235, T.239 Ligands: OLA.3, OLA.5 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.212, A:I.235, A:T.239 Salt bridges: A:H.228 OLA.5: 2 residues within 4Å: Chain A: H.228 Ligands: OLA.4 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.228 OLA.6: 10 residues within 4Å: Chain A: A.60, F.64, M.116, V.120, D.121, I.124, R.139, T.149, I.150, L.153 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.64, A:V.120, A:T.149, A:I.150, A:L.153 Hydrogen bonds: A:D.121 OLA.7: 6 residues within 4Å: Chain A: Y.123, F.205, C.210, T.213, I.214 Ligands: OLA.13 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.205, A:I.214 OLA.8: 2 residues within 4Å: Chain A: F.148 Ligands: OLA.9 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.148, A:F.148 OLA.9: 7 residues within 4Å: Chain A: W.52, M.63, N.67, L.74, W.151 Ligands: OLA.8, OLA.10 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.74, A:W.151 OLA.10: 5 residues within 4Å: Chain A: W.52, I.70, L.74, V.77 Ligands: OLA.9 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.70, A:L.74, A:V.77 OLA.11: 6 residues within 4Å: Chain A: S.45, L.49, W.52, Y.53, L.73, V.77 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.73, A:V.77 OLA.12: 4 residues within 4Å: Chain A: L.42, S.45, L.46, S.317 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.42, A:L.42, A:L.46 OLA.13: 3 residues within 4Å: Chain A: V.120, I.214 Ligands: OLA.7 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.120, A:I.214 OLA.14: 5 residues within 4Å: Chain A: I.257, A.261, F.263, I.264, V.269 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.257, A:I.257, A:A.261, A:F.263, A:F.263 Hydrogen bonds: A:S.265

1 x MLI: MALONATE ION(Non-functional Binders)

MLI.15: 5 residues within 4Å: Chain A: T.59, R.122, A.125, R.139 Ligands: 79K.1 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.122, A:R.122, A:R.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oswald, C. et al., Intracellular allosteric antagonism of the CCR9 receptor. Nature (2016)

Release Date

2016-12-07

Peptides

C-C chemokine receptor type 9: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Membrane

We predict this structure to be a membrane protein.
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C-C chemokine receptor type 9

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