SMTL ID : 8cxz.1 (2 other biounits)

CamA Adenine Methyltransferase Complexed to Cognate Substrate DNA and Inhibitor N6-(3-Phenylpropyl)adenosine (Compound 14)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

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

EDO.1: 7 residues within 4Å: Chain A: R.220, E.224, D.246, K.279, W.316, L.318, I.508 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.220, A:E.224, A:D.246, A:D.246, A:K.279, A:W.316, A:L.318

2 x K: POTASSIUM ION(Non-covalent)

K.2: 4 residues within 4Å: Chain A: K.88, K.89, Y.91, E.93 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:K.89, A:Y.91, A:E.93 K.3: 5 residues within 4Å: Chain A: G.249, A.250, N.251, V.258, S.259 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:G.249, A:V.258

1 x Q8Y: N-(3-phenylpropyl)adenosine(Non-covalent)

Q8Y.4: 17 residues within 4Å: Chain A: G.28, Y.30, I.61, S.62, G.64, D.114, I.115, D.116, C.148, D.149, S.150, N.165, P.167, E.175, Y.178, F.200 Chain C: A.8 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:I.115, A:D.149, A:D.149, A:S.150 Water bridges: A:Y.30, A:S.62, A:Y.168 pi-Stacking: A:Y.178, A:F.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, J. et al., Systematic Design of Adenosine Analogs as Inhibitors of a Clostridioides difficile- Specific DNA Adenine Methyltransferase Required for Normal Sporulation and Persistence. J.Med.Chem. (2023)

Release Date

2023-01-11

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Site-specific DNA-methyltransferase (adenine-specific)

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