SMTL ID : 4aad.1

Crystal structure of the mutant D75N I-CreI in complex with its wild- type target in absence of metal ions at the active site (The four central bases, 2NN region, are composed by GTAC from 5' to 3')

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-dimer

Ligands

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: D.19, T.45, K.47 Chain C: C.14, G.15 Ligands: GOL.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.47 GOL.2: 2 residues within 4Å: Chain B: K.81, H.84 No protein-ligand interaction detected (PLIP) GOL.3: 8 residues within 4Å: Chain B: Q.25, K.27, T.41, S.78 Chain C: A.5, A.6, C.7 Chain D: G.18 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Q.25, B:K.27, B:K.27, B:S.39, B:S.78, B:S.78 Water bridges: B:Y.65 GOL.4: 6 residues within 4Å: Chain A: G.18 Chain B: D.19, T.45, Q.46 Chain D: C.14, G.15 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Water bridges: A:G.18, A:D.19, B:D.19, B:D.19 Hydrogen bonds: B:Q.46 GOL.5: 7 residues within 4Å: Chain A: D.19 Chain B: G.18, G.20, S.21, K.97 Chain D: A.16 Ligands: GOL.1 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.21, B:K.97, B:K.97, A:D.19 GOL.6: 3 residues within 4Å: Chain B: L.105, K.106, E.109 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.109 GOL.7: 3 residues within 4Å: Chain C: A.13, C.14, G.15 No protein-ligand interaction detected (PLIP) GOL.8: 9 residues within 4Å: Chain A: K.27, T.41, Y.65, R.67, S.78 Chain C: G.18 Chain D: A.5, A.6, C.7 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.27, A:K.27, A:Y.65, A:Y.65, A:R.67, A:S.78, A:S.78

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Molina, R. et al., Non-Specific Protein-DNA Interactions Control I-Crei Target Binding and Cleavage. Nucleic Acids Res. (2012)

Release Date

2012-05-02

Peptides

DNA ENDONUCLEASE I-CREI: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA ENDONUCLEASE I-CREI

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