SMTL ID : 5isb.1

Crystal structure of mouse CARM1 in complex with inhibitor SA0435

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x 6CX: 5'-{[(3S)-3-amino-3-carboxypropyl][(1H-imidazol-4-yl)methyl]amino}-5'-deoxyadenosine(Non-covalent)

6CX.1: 32 residues within 4Å: Chain A: F.12, R.15, Y.24, F.25, Y.28, Q.34, M.37, M.38, R.43, D.65, G.67, C.68, G.69, S.70, I.72, L.73, V.88, E.89, A.90, S.91, G.115, K.116, V.117, E.118, E.132, P.133, M.134, G.135, E.141, M.143, S.146, W.290 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:Q.34, A:C.68, A:G.69, A:E.89, A:A.90, A:V.117, A:E.118, A:E.141 Water bridges: A:R.15, A:E.132, A:H.289 Salt bridges: A:R.43, A:E.132 pi-Stacking: A:F.25 6CX.9: 30 residues within 4Å: Chain B: F.12, Y.24, F.25, Y.28, Q.34, M.37, R.43, D.65, G.67, C.68, G.69, S.70, I.72, L.73, V.88, E.89, A.90, S.91, G.115, K.116, V.117, E.118, E.132, P.133, M.134, G.135, E.141, M.143, S.146 Ligands: EDO.12 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:Q.34, B:C.68, B:G.69, B:E.89, B:A.90, B:V.117, B:E.118, B:E.141 Water bridges: B:R.15, B:G.71, B:E.132, B:W.290, B:W.290 Salt bridges: B:R.43, B:E.132 pi-Stacking: B:F.25 6CX.17: 29 residues within 4Å: Chain C: F.12, Y.24, F.25, Y.28, Q.34, M.37, R.43, D.65, G.67, C.68, G.69, S.70, I.72, L.73, V.88, E.89, A.90, S.91, G.115, K.116, V.117, E.118, E.132, P.133, M.134, G.135, E.141, M.143, S.146 16 PLIP interactions: 16 interactions with chain C Hydrogen bonds: C:Q.34, C:C.68, C:G.69, C:E.89, C:E.89, C:A.90, C:V.117, C:E.118, C:E.141 Water bridges: C:R.15, C:Q.34, C:G.71, C:E.132 Salt bridges: C:R.43, C:E.132 pi-Stacking: C:F.25 6CX.24: 30 residues within 4Å: Chain D: F.12, Y.24, F.25, Y.28, Q.34, M.37, R.43, D.65, G.67, C.68, G.69, S.70, I.72, L.73, V.88, E.89, A.90, S.91, G.115, K.116, V.117, E.118, S.131, E.132, P.133, M.134, G.135, E.141, M.143, S.146 16 PLIP interactions: 16 interactions with chain D Hydrogen bonds: D:Q.34, D:C.68, D:G.69, D:E.89, D:E.89, D:A.90, D:V.117, D:E.118, D:E.141 Water bridges: D:R.15, D:Q.34, D:L.73, D:E.132 Salt bridges: D:R.43, D:E.132 pi-Stacking: D:F.25

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

EDO.2: 4 residues within 4Å: Chain A: Q.23, Y.24, F.27, Y.28 Ligand excluded by PLIP EDO.3: 6 residues within 4Å: Chain A: K.151, L.154, K.155, P.156, S.157, G.158 Ligand excluded by PLIP EDO.4: 5 residues within 4Å: Chain A: E.18, A.21, V.22, F.25, K.116 Ligand excluded by PLIP EDO.10: 5 residues within 4Å: Chain B: Y.24, F.27, Y.28, E.141 Ligands: EDO.12 Ligand excluded by PLIP EDO.11: 3 residues within 4Å: Chain B: D.40, L.287, H.289 Ligand excluded by PLIP EDO.12: 8 residues within 4Å: Chain B: M.134, G.135, Y.136, E.141, H.289, W.290 Ligands: 6CX.9, EDO.10 Ligand excluded by PLIP EDO.13: 5 residues within 4Å: Chain B: Y.136, V.215, Y.291, F.349, Y.351 Ligand excluded by PLIP EDO.14: 3 residues within 4Å: Chain B: K.151, L.154, P.156 Ligand excluded by PLIP EDO.18: 3 residues within 4Å: Chain C: D.267, W.278, S.280 Ligand excluded by PLIP EDO.19: 5 residues within 4Å: Chain C: D.40, L.287, T.288, H.289, Y.291 Ligand excluded by PLIP EDO.20: 3 residues within 4Å: Chain C: I.271, G.272, S.273 Ligand excluded by PLIP EDO.21: 3 residues within 4Å: Chain C: L.52, H.55 Ligands: PEG.22 Ligand excluded by PLIP EDO.25: 3 residues within 4Å: Chain D: D.267, W.278, S.280 Ligand excluded by PLIP EDO.26: 3 residues within 4Å: Chain D: Q.125, K.152, Y.153 Ligand excluded by PLIP EDO.27: 4 residues within 4Å: Chain D: Y.24, F.27, Y.28, E.141 Ligand excluded by PLIP EDO.28: 4 residues within 4Å: Chain D: T.173, D.174, E.175, I.222 Ligand excluded by PLIP

7 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 7 residues within 4Å: Chain A: Q.48, L.52, Q.79 Chain D: D.332, Q.333, T.334, G.335 No protein-ligand interaction detected (PLIP) PEG.6: 4 residues within 4Å: Chain A: D.267, W.278, S.280, E.285 No protein-ligand interaction detected (PLIP) PEG.7: 8 residues within 4Å: Chain A: Q.39, D.40, Y.41, L.287, T.288, H.289, Y.291, Y.351 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.41, A:Y.41 PEG.15: 4 residues within 4Å: Chain B: S.121, Q.125, K.152, Y.153 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.153 PEG.16: 3 residues within 4Å: Chain B: D.267, W.278, S.280 2 PLIP interactions: 2 interactions with chain B Water bridges: B:E.285, B:E.285 PEG.22: 10 residues within 4Å: Chain B: D.332, Q.333, T.334, G.335 Chain C: Q.48, L.52, Q.79 Chain D: H.194, G.195 Ligands: EDO.21 No protein-ligand interaction detected (PLIP) PEG.29: 9 residues within 4Å: Chain D: N.36, M.37, Q.39, D.40, L.287, T.288, H.289, Y.291, Y.351 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Y.291 Water bridges: D:Y.41

1 x M2M: 1-METHOXY-2-(2-METHOXYETHOXY)ETHANE(Non-covalent)

M2M.8: 8 residues within 4Å: Chain A: D.57, S.157, G.158, N.159, L.235, I.271, G.272, S.273 2 PLIP interactions: 2 interactions with chain A Water bridges: A:N.159, A:N.159

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

PG4.23: 6 residues within 4Å: Chain C: K.151, L.154, K.155, P.156, L.235, E.236 2 PLIP interactions: 2 interactions with chain C Water bridges: C:K.151, C:K.151

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cura, V. et al., Crystal structure of mouse CARM1 in complex with inhibitor SA0435. To Be Published

Release Date

2017-03-29

Peptides

Histone-arginine methyltransferase CARM1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Histone-arginine methyltransferase CARM1

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