SMTL ID : 4esj.1 (1 other biounit)

RESTRICTION ENDONUCLEASE DpnI IN COMPLEX WITH TARGET DNA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.37, C.40, C.59, C.62 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.37, A:C.40, A:C.59, A:C.62 ZN.2: 2 residues within 4Å: Chain A: E.5, H.7 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.5, A:H.7

1 x AZI: AZIDE ION(Non-covalent)

AZI.3: 4 residues within 4Å: Chain A: N.9, L.12, D.29, R.33 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.9

2 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.4: 5 residues within 4Å: Chain B: G.4, A.5, T.6 Chain C: C.7, C.8 No protein-ligand interaction detected (PLIP) UNX.6: 4 residues within 4Å: Chain B: T.6, C.7 Chain C: T.6, C.7 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain A: H.228, E.231 Chain C: T.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Siwek, W. et al., Crystal structure and mechanism of action of the N6-methyladenine-dependent type IIM restriction endonuclease R.DpnI. Nucleic Acids Res. (2012)

Release Date

2012-06-13

Peptides

Type-2 restriction enzyme DpnI: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Type-2 restriction enzyme DpnI

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