SMTL ID : 6pvb.1

The structure of NTMT1 in complex with compound 6

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x P2J- GLZ- PRO- LYS- ARG- ILE- ALA- NH2: AMINO GROUP-()-(2~{S})-2-azanylpropanal-()-ISOLEUCINE-()-ARGININE-()-LYSINE-()-PROLINE-()-AMINO-ACETALDEHYDE-()-9-(5-{[(3S)-3-amino-3-carboxypropyl](pentyl)amino}-5-deoxy-beta-L-arabinofuranosyl)-9H-purin-6-amine(Non-covalent)

P2J-GLZ-PRO-LYS-ARG-ILE-ALA-NH2.1: 19 residues within 4Å: Chain A: Y.37, W.38, D.46, M.48, L.49, G.50, G.51, Y.52, I.55, W.154, N.186, Q.189, D.195, V.197, D.198, S.200, E.231, I.232, Y.233 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:W.38, A:Y.52, A:I.55, A:W.154, A:V.197, A:I.232, A:Y.233, A:Y.233 Hydrogen bonds: A:D.46, A:N.186, A:D.195, A:D.195, A:D.195, A:S.200, A:E.231, A:Y.233, A:Y.233 Water bridges: A:Y.37, A:N.186

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

SAH.2: 20 residues within 4Å: Chain A: W.38, M.48, G.87, A.88, G.89, R.92, I.93, D.109, I.110, T.111, F.114, C.135, G.136, L.137, Q.138, Q.153, W.154, V.155, H.158, L.159 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.87, A:I.110, A:T.111, A:T.111, A:L.137, A:Q.138, A:Q.138 Water bridges: A:Q.153 Salt bridges: A:R.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, D. et al., Probing the Plasticity in the Active Site of Protein N-terminal Methyltransferase 1 Using Bisubstrate Analogues. J.Med.Chem. (2020)

Release Date

2020-08-19

Peptides

N-terminal Xaa-Pro-Lys N-methyltransferase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

N-terminal Xaa-Pro-Lys N-methyltransferase 1

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