SMTL ID : 7rfk.3 (2 other biounits)

CamA Adenine Methyltransferase Complexed to Cognate Substrate DNA and Inhibitor Sinefungin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

1 x SFG: SINEFUNGIN(Non-covalent)

SFG.1: 25 residues within 4Å: Chain A: S.28, G.29, I.30, Y.31, Y.32, T.33, D.61, I.62, S.63, C.64, G.65, N.68, F.69, D.115, I.116, D.117, C.149, D.150, S.151, N.166, P.168, Y.179, F.201 Chain B: A.8 Ligands: EDO.2 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.32 Hydrogen bonds: A:Y.31, A:T.33, A:S.63, A:I.116, A:D.150, A:S.151, A:N.166, A:N.166, A:N.166 pi-Stacking: A:F.201

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

EDO.2: 4 residues within 4Å: Chain A: I.170, Y.179, L.197 Ligands: SFG.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.179 EDO.3: 7 residues within 4Å: Chain A: R.221, L.224, E.225, D.247, K.280, W.317, L.319 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.221, A:D.247, A:K.280, A:W.317, A:L.319 EDO.4: 5 residues within 4Å: Chain A: D.193, K.194, L.227, S.228 Chain B: A.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.194, A:S.228 Water bridges: A:A.195 EDO.5: 3 residues within 4Å: Chain B: A.7 Chain C: T.8, T.9 No protein-ligand interaction detected (PLIP) EDO.6: 3 residues within 4Å: Chain A: R.426 Chain C: G.13, A.14 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.426

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, J. et al., Repurposing epigenetic inhibitors to target the Clostridioides difficile- specific DNA adenine methyltransferase and sporulation regulator CamA. Epigenetics (2022)

Release Date

2021-09-15

Peptides

Site-specific DNA-methyltransferase (adenine-specific): A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Site-specific DNA-methyltransferase (adenine-specific)

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