SMTL ID : 6v0o.1 (1 other biounit)

PRMT5 bound to the PBM peptide from pICln

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.86 Å

Oligo State

hetero-4-4-mer

Ligands

4 x SFG: SINEFUNGIN(Non-covalent)

SFG.1: 25 residues within 4Å: Chain A: P.314, L.315, L.319, Y.324, F.327, E.328, K.333, Y.334, G.365, A.366, G.367, P.370, L.371, V.391, E.392, K.393, N.394, S.418, D.419, M.420, R.421, E.435, L.436, E.444, C.449 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:P.314, A:Y.324, A:Y.324, A:Y.334, A:G.365, A:G.367, A:K.393, A:D.419, A:M.420, A:E.435 Salt bridges: A:K.333 pi-Cation interactions: A:K.393 SFG.3: 25 residues within 4Å: Chain C: P.314, L.315, L.319, Y.324, F.327, E.328, K.333, Y.334, G.365, A.366, G.367, P.370, L.371, V.391, E.392, K.393, N.394, S.418, D.419, M.420, R.421, E.435, L.436, E.444, C.449 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:P.314, C:Y.324, C:Y.324, C:Y.334, C:G.365, C:G.367, C:K.393, C:D.419, C:M.420, C:E.435 Salt bridges: C:K.333 pi-Cation interactions: C:K.393 SFG.5: 25 residues within 4Å: Chain E: P.314, L.315, L.319, Y.324, F.327, E.328, K.333, Y.334, G.365, A.366, G.367, P.370, L.371, V.391, E.392, K.393, N.394, S.418, D.419, M.420, R.421, E.435, L.436, E.444, C.449 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:P.314, E:Y.324, E:Y.334, E:Y.334, E:G.365, E:G.367, E:K.393, E:D.419, E:M.420, E:E.435 Salt bridges: E:K.333 pi-Cation interactions: E:K.393 SFG.7: 25 residues within 4Å: Chain G: P.314, L.315, L.319, Y.324, F.327, E.328, K.333, Y.334, G.365, A.366, G.367, P.370, L.371, V.391, E.392, K.393, N.394, S.418, D.419, M.420, R.421, E.435, L.436, E.444, C.449 12 PLIP interactions: 12 interactions with chain G Hydrogen bonds: G:P.314, G:Y.324, G:Y.334, G:Y.334, G:G.365, G:G.367, G:K.393, G:D.419, G:M.420, G:E.435 Salt bridges: G:K.333 pi-Cation interactions: G:K.393

4 x ACE: ACETYL GROUP(Non-functional Binders)

ACE.2: 2 residues within 4Å: Chain A: Y.304, Q.309 No protein-ligand interaction detected (PLIP) ACE.4: 2 residues within 4Å: Chain C: Y.304, Q.309 No protein-ligand interaction detected (PLIP) ACE.6: 2 residues within 4Å: Chain E: Y.304, Q.309 No protein-ligand interaction detected (PLIP) ACE.8: 2 residues within 4Å: Chain G: Y.304, Q.309 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mulvaney, K.M. et al., Molecular basis for substrate recruitment to the PRMT5 methylosome. Mol.Cell (2021)

Release Date

2020-08-26

Peptides

Protein arginine N-methyltransferase 5: ACEG
Methylosome protein 50: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
A

B
B

D
B

F
B

H
B

Protein arginine N-methyltransferase 5

Methylosome protein 50

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