SMTL ID : 1wtd.1

Crystal structure of type II restrcition endonuclease, EcoO109I DNA-free form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: K.9, E.12, C.13, R.83 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.9, A:E.12, A:R.83 GOL.2: 3 residues within 4Å: Chain A: S.23, T.26, M.29 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.26 GOL.3: 8 residues within 4Å: Chain A: I.35, N.36, M.39, I.43, I.59, K.62 Chain B: M.65, D.69 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.36, A:K.62 Water bridges: B:D.69, B:D.69 GOL.4: 4 residues within 4Å: Chain A: E.213, H.216 Chain B: H.264, E.268 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.213 GOL.5: 4 residues within 4Å: Chain B: S.23, T.26, L.28, M.29 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.26 GOL.6: 6 residues within 4Å: Chain A: E.223 Chain B: N.256, A.261, Q.262, W.263, H.264 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.256, B:W.263, B:H.264 GOL.7: 5 residues within 4Å: Chain A: H.47 Chain B: E.57, I.60, A.61, I.239 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:H.47, B:E.57 GOL.8: 7 residues within 4Å: Chain A: D.69 Chain B: I.35, N.36, M.39, I.43, I.59, K.62 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Water bridges: A:D.69 Hydrogen bonds: B:N.36, B:K.62 GOL.9: 7 residues within 4Å: Chain A: A.61, K.62, M.65 Chain B: H.47, A.58, A.61, K.62 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.47, B:A.61 GOL.10: 5 residues within 4Å: Chain B: R.21, K.24, H.63, L.64, G.67 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.21, B:R.21, B:T.32, B:T.32, B:L.64, B:G.67

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hashimoto, H. et al., Crystal structures of type II restriction endonuclease EcoO109I and its complex with cognate DNA. J.Biol.Chem. (2005)

Release Date

2004-12-14

Peptides

EcoO109IR: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

EcoO109IR

Related Entries With Identical Sequence