SMTL ID : 7si5.1

CRYSTAL STRUCTURE OF EED WITH MRTX-1919

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 2 residues within 4Å: Chain A: N.47, S.48 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.47, A:S.48, A:S.48 NA.2: 3 residues within 4Å: Chain A: P.243, T.246 Ligands: FMT.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.243

1 x 9L0: (4R)-8-(1,3-dimethyl-1H-pyrazol-5-yl)-5-{[(5-fluoro-2,3-dihydro-1-benzofuran-4-yl)methyl]amino}imidazo[1,2-c]pyrimidine-2-carbonitrile(Non-covalent)

9L0.3: 12 residues within 4Å: Chain A: F.58, N.107, Y.109, N.155, K.172, E.199, L.201, D.271, Y.326, M.327, R.328, R.375 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.58, A:F.58, A:D.271, A:Y.326, A:Y.326, A:R.328 Hydrogen bonds: A:N.155 Water bridges: A:Y.109 pi-Stacking: A:F.58, A:Y.109, A:Y.109, A:Y.326, A:Y.326, A:Y.326 pi-Cation interactions: A:R.328

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: K.50, E.51, D.52, R.81, Y.85 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.52, A:D.52, A:R.81, A:Y.85 EDO.5: 2 residues within 4Å: Chain A: I.189, H.256 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.256

13 x FMT: FORMIC ACID(Non-functional Binders)

FMT.6: 4 residues within 4Å: Chain A: S.48, L.49, K.50, S.394 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.48, A:K.50 FMT.7: 6 residues within 4Å: Chain A: C.45, V.46, N.47, S.48, H.367, W.396 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.48 FMT.8: 2 residues within 4Å: Chain A: D.105, N.107 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.105, A:S.129 FMT.9: 8 residues within 4Å: Chain A: H.65, W.113, T.114, F.159, H.160, P.161, D.163, P.164 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.161 FMT.10: 6 residues within 4Å: Chain A: Y.241, P.243, T.246, N.247, R.248 Ligands: NA.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.246 FMT.11: 4 residues within 4Å: Chain A: D.264, I.265, H.266, R.267 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.264 FMT.12: 3 residues within 4Å: Chain A: S.320, K.346, Y.348 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.320, A:K.346, A:Y.348, A:Y.348 FMT.13: 3 residues within 4Å: Chain A: C.285, D.323, W.325 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.325 FMT.14: 2 residues within 4Å: Chain A: V.344, G.371 No protein-ligand interaction detected (PLIP) FMT.15: 3 residues within 4Å: Chain A: L.279, K.293, M.297 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.293 FMT.16: 2 residues within 4Å: Chain A: D.173, H.174 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.174 FMT.17: 3 residues within 4Å: Chain A: H.65, Y.115, S.120 No protein-ligand interaction detected (PLIP) FMT.18: 5 residues within 4Å: Chain A: R.230, K.254, I.255, H.256, F.257 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.230, A:R.230, A:H.256, A:F.257 Water bridges: A:K.254

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Burns, A.C., CRYSTAL STRUCTURE OF EED WITH MRTX-1919. TO BE PUBLISHED

Release Date

2022-11-09

Peptides

Polycomb protein EED: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Polycomb protein EED

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