SMTL ID : 7rfm.2 (2 other biounits)

CamA Adenine Methyltransferase Complexed to Cognate Substrate DNA and Inhibitor EPZ004777

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.68 Å

Oligo State

monomer

Ligands

1 x 0QK: 7-{5-[(3-{[(4-tert-butylphenyl)carbamoyl]amino}propyl)(propan-2-yl)amino]-5-deoxy-beta-D-ribofuranosyl}-7H-pyrrolo[2,3-d]pyrimidin-4-amine(Non-covalent)

0QK.1: 22 residues within 4Å: Chain A: K.26, A.27, Y.31, I.62, S.63, G.65, C.66, N.68, D.115, I.116, D.117, K.119, A.120, I.123, C.149, D.150, S.151, N.166, P.168, Y.179, F.201 Chain B: A.8 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.116, A:K.119, A:A.120, A:I.123, A:P.168 Hydrogen bonds: A:K.26, A:K.26, A:C.66, A:N.68, A:I.116, A:D.117, A:D.150, A:S.151 pi-Stacking: A:F.201

2 x K: POTASSIUM ION(Non-covalent)

K.2: 5 residues within 4Å: Chain A: G.250, A.251, N.252, V.259, S.260 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:G.250, A:S.260 K.3: 4 residues within 4Å: Chain A: K.89, K.90, Y.92, E.94 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:K.90, A:Y.92, A:E.94

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

EDO.4: 5 residues within 4Å: Chain A: Y.86, K.89, W.97, T.98, V.99 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.89, A:K.89, A:V.99 EDO.5: 4 residues within 4Å: Chain A: S.345, F.446 Chain B: C.3, A.4 No protein-ligand interaction detected (PLIP)

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
B

Site-specific DNA-methyltransferase (adenine-specific)

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