SMTL ID : 1dc1.1

RESTRICTION ENZYME BSOBI/DNA COMPLEX STRUCTURE: ENCIRCLEMENT OF THE DNA AND HISTIDINE-CATALYZED HYDROLYSIS WITHIN A CANONICAL RESTRICTION ENZYME FOLD

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

10 x DIO: 1,4-DIETHYLENE DIOXIDE(Non-covalent)

DIO.1: 6 residues within 4Å: Chain C: Y.21 Chain D: K.84, F.85, L.86, T.87 Ligands: DIO.3 No protein-ligand interaction detected (PLIP) DIO.2: 8 residues within 4Å: Chain C: A.136, Q.139, Q.140, S.162, E.181, T.182, F.183, A.184 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:Q.140, C:S.162 Water bridges: C:Q.139 DIO.3: 4 residues within 4Å: Chain C: Y.21 Chain D: K.84, F.85 Ligands: DIO.1 No protein-ligand interaction detected (PLIP) DIO.4: 4 residues within 4Å: Chain C: K.84, F.85 Chain D: Y.21 Ligands: DIO.10 No protein-ligand interaction detected (PLIP) DIO.5: 9 residues within 4Å: Chain C: I.78, L.86, D.90, E.93, S.94, N.97 Chain D: I.29, A.32, L.33 1 PLIP interactions: 1 interactions with chain C Water bridges: C:N.97 DIO.6: 5 residues within 4Å: Chain D: Q.69, D.70, L.73, K.91, I.95 No protein-ligand interaction detected (PLIP) DIO.7: 8 residues within 4Å: Chain D: A.136, Q.139, Q.140, S.162, E.181, T.182, F.183, A.184 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Q.139, D:Q.140, D:S.162 DIO.8: 7 residues within 4Å: Chain C: I.29 Chain D: I.78, L.86, D.90, E.93, S.94, N.97 No protein-ligand interaction detected (PLIP) DIO.9: 5 residues within 4Å: Chain A: T.6 Chain D: Q.139, N.201, D.212, L.241 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.201 DIO.10: 7 residues within 4Å: Chain C: F.85 Chain D: K.18, Y.21, Y.24, P.247, E.285 Ligands: DIO.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

van der Woerd, M.J. et al., Restriction enzyme BsoBI-DNA complex: a tunnel for recognition of degenerate DNA sequences and potential histidine catalysis. Structure (2001)

Release Date

2001-02-21

Peptides

BSOBI RESTRICTION ENDONUCLEASE: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

D
B

BSOBI RESTRICTION ENDONUCLEASE