SMTL ID : 5ih3.1

Crystal structure of mouse CARM1 in complex with SAH at 1.8 Angstroms resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

homo-tetramer

Ligands

4 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 27 residues within 4Å: Chain A: F.12, Y.24, F.25, Y.28, Q.34, M.37, M.38, R.43, D.65, G.67, C.68, G.69, S.70, G.71, I.72, L.73, V.88, E.89, A.90, S.91, G.115, K.116, V.117, E.118, E.132, M.143, S.146 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:Q.34, A:G.67, A:G.69, A:E.89, A:E.89, A:A.90, A:S.91, A:V.117, A:E.118 Water bridges: A:R.15, A:Q.34, A:E.132 Salt bridges: A:R.43 pi-Stacking: A:F.25 SAH.8: 27 residues within 4Å: Chain B: F.12, R.15, Y.24, F.25, Y.28, Q.34, M.37, R.43, D.65, G.67, C.68, G.69, S.70, G.71, I.72, L.73, V.88, E.89, A.90, S.91, G.115, K.116, V.117, E.118, E.132, M.143, S.146 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:Q.34, B:G.67, B:G.69, B:E.89, B:E.89, B:A.90, B:V.117, B:E.118 Water bridges: B:R.15, B:E.132 Salt bridges: B:R.43 pi-Stacking: B:F.25 SAH.16: 29 residues within 4Å: Chain C: 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, G.71, 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.143, S.146 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:Y.24, C:Q.34, C:G.67, C:G.69, C:E.89, C:E.89, C:A.90, C:S.91, C:V.117, C:E.118 Water bridges: C:R.15, C:E.132 Salt bridges: C:R.43 pi-Stacking: C:F.25 SAH.24: 27 residues within 4Å: Chain D: F.12, R.15, Y.24, F.25, Y.28, Q.34, M.37, R.43, D.65, G.67, C.68, G.69, S.70, G.71, I.72, L.73, V.88, E.89, A.90, S.91, G.115, K.116, V.117, E.118, E.132, M.143, S.146 14 PLIP interactions: 14 interactions with chain D Hydrogen bonds: D:Q.34, D:G.67, D:G.69, D:E.89, D:E.89, D:A.90, D:S.91, D:V.117, D:E.118 Water bridges: D:R.15, D:Q.34, D:E.132 Salt bridges: D:R.43 pi-Stacking: D:F.25

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

EDO.2: 7 residues within 4Å: Chain A: F.12, E.18, A.21, V.22, F.25, A.90, K.116 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.18, A:K.116 Water bridges: A:A.90 EDO.3: 3 residues within 4Å: Chain A: D.267, W.278, S.280 No protein-ligand interaction detected (PLIP) EDO.9: 6 residues within 4Å: Chain B: E.18, A.21, V.22, F.25, A.90, K.116 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.116 Water bridges: B:A.90 EDO.10: 6 residues within 4Å: Chain B: P.248, F.249, K.250, S.310, G.311, T.312 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.312, B:T.312 EDO.11: 3 residues within 4Å: Chain B: D.267, W.278, S.280 2 PLIP interactions: 2 interactions with chain B Water bridges: B:S.280, B:E.285 EDO.17: 5 residues within 4Å: Chain C: D.40, L.287, T.288, H.289, Y.291 1 PLIP interactions: 1 interactions with chain C Water bridges: C:N.36 EDO.18: 3 residues within 4Å: Chain C: I.271, G.272, S.273 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.273 Water bridges: C:N.159 EDO.19: 3 residues within 4Å: Chain C: D.267, W.278, S.280 1 PLIP interactions: 1 interactions with chain C Water bridges: C:E.285 EDO.25: 6 residues within 4Å: Chain D: Q.23, Y.24, F.27, Y.28, E.141, K.345 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.23, D:Q.23 EDO.26: 3 residues within 4Å: Chain D: D.267, W.278, S.280 No protein-ligand interaction detected (PLIP) EDO.27: 3 residues within 4Å: Chain D: D.40, L.287, H.289 No protein-ligand interaction detected (PLIP)

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

PEG.4: 7 residues within 4Å: Chain A: Y.178, F.182, V.206, D.207, F.210, Q.298, S.299 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.207, A:Q.298 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: 8 residues within 4Å: Chain A: Q.23, Y.24, F.27, Y.28, Y.136, N.140, E.141, K.345 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.23 Water bridges: A:E.141, A:E.141 PEG.12: 6 residues within 4Å: Chain B: Q.23, Y.24, F.27, Y.28, E.141, K.345 2 PLIP interactions: 2 interactions with chain B Water bridges: B:N.140, B:E.141 PEG.20: 7 residues within 4Å: Chain C: Y.178, F.182, V.206, D.207, F.210, Q.298, S.299 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.207, C:D.207 Water bridges: C:D.207 PEG.21: 7 residues within 4Å: Chain C: K.151, L.154, K.155, P.156, G.158, L.235, E.236 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:L.235

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.7: 7 residues within 4Å: Chain A: S.157, G.158, N.159, L.235, I.271, G.272, S.273 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.159, A:S.273

1 x PE8: 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL(Non-covalent)

PE8.13: 12 residues within 4Å: Chain B: R.9, S.10, P.114, G.115, K.116, E.118, E.119, V.120, S.121, Q.125, K.152, Y.153 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:P.114, B:Q.125, B:Q.125

4 x DXE: 1,2-DIMETHOXYETHANE(Non-covalent)

DXE.14: 8 residues within 4Å: Chain B: N.36, Q.39, D.40, L.287, T.288, H.289, Y.291, Y.351 No protein-ligand interaction detected (PLIP) DXE.15: 7 residues within 4Å: Chain B: K.151, K.152, L.154, K.155, P.156, G.158, L.235 No protein-ligand interaction detected (PLIP) DXE.22: 7 residues within 4Å: Chain B: Q.330, D.332, T.334, G.335 Chain C: Q.48, L.52, Q.79 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.48 DXE.23: 7 residues within 4Å: Chain C: Q.23, Y.24, F.27, Y.28, Y.136, E.141, K.345 1 PLIP interactions: 1 interactions with chain C Water bridges: C:N.140

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cura, V. et al., Crystal structure of mouse CARM1 in complex with SAH at 1.8 Angstroms resolution. 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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