SMTL ID : 7vru.1

Crystal structure of PacII_M1M2S-DNA-SAH complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 18 residues within 4Å: Chain A: A.177, A.178, F.180, Y.181, T.182, D.204, T.206, C.207, G.208, M.212, E.236, V.237, G.262, D.263, T.264, N.285, P.287, F.320 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.181 Hydrogen bonds: A:T.182, A:T.206, A:V.237, A:D.263, A:T.264, A:N.285 Water bridges: A:Y.181, A:C.207, A:G.211, A:T.241 SAH.2: 23 residues within 4Å: Chain A: G.30 Chain E: E.170, F.171, Y.172, T.173, R.175, P.196, A.197, C.198, G.199, T.200, G.201, G.202, M.203, E.227, K.228, N.229, G.253, D.254, T.255, N.276, P.278, W.311 17 PLIP interactions: 17 interactions with chain E Hydrogen bonds: E:E.170, E:F.171, E:T.173, E:T.173, E:T.173, E:T.200, E:G.201, E:G.202, E:K.228, E:D.254, E:D.254, E:T.255 Water bridges: E:K.228, E:N.229, E:N.229 Salt bridges: E:R.175 pi-Stacking: E:W.311

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, J. et al., Molecular insights into DNA recognition and methylation by non-canonical type I restriction-modification systems. Nat Commun (2022)

Release Date

2022-11-30

Peptides

Site-specific DNA-methyltransferase (adenine-specific): A
Site-specific DNA recognition subunit: B
Site-specific DNA-methyltransferase (adenine-specific): E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

E
A

Site-specific DNA-methyltransferase (adenine-specific)

Site-specific DNA recognition subunit

Site-specific DNA-methyltransferase (adenine-specific)

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