SMTL ID : 7oem.1

Crystal structure of the human METTL3-METTL14 complex with compound UOZ120

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-mer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: H.140, H.144 Chain B: C.151, E.152 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Metal complexes: B:E.152, B:E.152, A:H.144 MG.2: 2 residues within 4Å: Chain A: H.178, D.181 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.178, A:D.181, A:D.181 MG.4: 3 residues within 4Å: Chain B: D.52, H.227, H.231 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.52, B:D.52, B:H.227, B:H.231 MG.5: 4 residues within 4Å: Chain B: H.17, T.21, H.23, F.28 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:H.23, B:H.23

1 x VB8: 4-[(4,4-dimethylpiperidin-1-yl)methyl]-2-methylsulfanyl-~{N}-[[(3~{R})-3-oxidanyl-1-[6-[(phenylmethyl)amino]pyrimidin-4-yl]piperidin-3-yl]methyl]benzamide(Non-covalent)

VB8.3: 21 residues within 4Å: Chain A: C.42, D.43, I.44, R.45, D.61, P.62, P.63, G.73, T.74, L.75, W.97, W.123, E.147, S.177, K.179, F.200, G.201, R.202, G.214, N.215, Q.216 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.97, A:W.123, A:S.177, A:K.179 Hydrogen bonds: A:D.43, A:I.44, A:F.200, A:N.215, A:Q.216, A:Q.216 Salt bridges: A:D.61 pi-Stacking: A:F.200

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 5 residues within 4Å: Chain A: E.104 Chain B: R.140, R.144, R.149, R.150 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:R.144, B:R.150 Hydrogen bonds: B:R.150 Salt bridges: B:R.144

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bedi, R.K. et al., Structure-Based Design of Inhibitors of the m6A-RNA Writer Enzyme METTL3. Acs Bio Med Chem Au (2023)

Release Date

2021-10-20

Peptides

N6-adenosine-methyltransferase catalytic subunit: A
N6-adenosine-methyltransferase non-catalytic subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

N6-adenosine-methyltransferase catalytic subunit

N6-adenosine-methyltransferase non-catalytic subunit

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