SMTL ID : 8ipk.1

The structure of human mitochondrial methyltransferase METTL15 with SAM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 22 residues within 4Å: Chain A: P.5, T.27, F.28, G.29, S.30, G.31, G.32, H.33, D.50, R.51, D.52, G.75, Q.76, F.77, D.100, L.101, G.102, C.103, S.104, Q.107, M.127, E.229 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:T.27, A:G.29, A:S.30, A:G.31, A:G.32, A:H.33, A:R.51, A:R.51, A:F.77, A:D.100, A:S.104, A:Q.107, A:Q.107, A:E.229, A:E.229 Water bridges: A:T.34, A:D.52, A:S.104 Salt bridges: A:H.33, A:D.100 pi-Stacking: A:F.77

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 1 residues within 4Å: Chain A: S.196 No protein-ligand interaction detected (PLIP) GOL.3: 4 residues within 4Å: Chain A: G.191, A.192, F.193, P.194 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:F.193 GOL.4: 1 residues within 4Å: Chain A: K.311 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.311, A:K.311 GOL.5: 5 residues within 4Å: Chain A: R.51, Q.76, D.128, Y.132, M.135 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.51, A:Q.76 Water bridges: A:V.223

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lv, M. et al., Structural insights into the specific recognition of mitochondrial ribosome-binding factor hsRBFA and 12 S rRNA by methyltransferase METTL15. Cell Discov (2024)

Release Date

2024-01-03

Peptides

12S rRNA N4-methylcytidine (m4C) methyltransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

12S rRNA N4-methylcytidine (m4C) methyltransferase

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