SMTL ID : 6dvr.1 (1 other biounit)

Crystal structure of human CARM1 with (R)-SKI-72

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

homo-dimer

Ligands

2 x HDG: (2R,5S)-2-amino-6-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]-5-[(benzylamino)methyl]-N-[2-(4-methoxyphenyl)ethyl]hexanamide (non-preferred name)(Non-covalent)

HDG.1: 28 residues within 4Å: Chain A: Y.4, F.5, F.7, Y.8, Q.13, Q.14, N.16, M.17, R.23, T.24, G.47, G.49, I.52, L.53, E.69, A.70, S.71, G.95, K.96, V.97, E.98, E.112, P.113, M.114, E.121, M.123, S.126 Ligands: P15.2 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:F.7, A:I.52, A:L.53, A:L.53, A:E.112 Hydrogen bonds: A:Q.14, A:N.16, A:R.23, A:G.47, A:G.49, A:A.70, A:S.71, A:S.71, A:V.97, A:E.98, A:M.114, A:E.121, A:S.126 Water bridges: A:E.112, A:E.121 pi-Stacking: A:F.5, A:F.7 HDG.7: 28 residues within 4Å: Chain B: Y.4, F.5, F.7, Y.8, Q.13, Q.14, N.16, M.17, R.23, T.24, G.47, G.49, I.52, L.53, E.69, A.70, S.71, G.95, K.96, V.97, E.98, E.112, P.113, M.114, E.121, M.123, S.126 Ligands: P15.8 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:F.7, B:Q.13, B:I.52, B:L.53, B:L.53, B:E.112 Hydrogen bonds: B:Y.4, B:Q.13, B:Q.14, B:N.16, B:R.23, B:G.47, B:G.49, B:A.70, B:S.71, B:S.71, B:V.97, B:E.98, B:M.114, B:E.121, B:S.126 Water bridges: B:E.121 pi-Stacking: B:F.5, B:F.7

2 x P15: 2,5,8,11,14,17-HEXAOXANONADECAN-19-OL(Non-covalent)

P15.2: 8 residues within 4Å: Chain A: F.7, N.16, R.23, Y.116, E.121, H.269, W.270 Ligands: HDG.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.23, A:R.23 Water bridges: A:Y.116, A:N.120 P15.8: 7 residues within 4Å: Chain B: N.16, R.23, Y.116, N.120, H.269, W.270 Ligands: HDG.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.23, B:R.23 Water bridges: B:Y.116, B:N.120

6 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.3: 2 residues within 4Å: Chain A: L.267, H.269 No protein-ligand interaction detected (PLIP) UNX.4: 2 residues within 4Å: Chain A: D.247, W.258 No protein-ligand interaction detected (PLIP) UNX.5: 4 residues within 4Å: Chain A: F.190, L.276, N.320, L.322 No protein-ligand interaction detected (PLIP) UNX.6: 1 residues within 4Å: Chain A: P.339 No protein-ligand interaction detected (PLIP) UNX.9: 2 residues within 4Å: Chain B: D.247, W.258 No protein-ligand interaction detected (PLIP) UNX.10: 4 residues within 4Å: Chain B: F.190, L.276, N.320, L.321 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zeng, H. et al., Crystal structure of human CARM1 with (R)-SKI-72. to be published

Release Date

2018-07-25

Peptides

Histone-arginine methyltransferase CARM1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histone-arginine methyltransferase CARM1

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