SMTL ID : 4aqx.1

Crystal structure of I-CreI complexed with its target methylated at position plus 2 (in the b strand) in the presence of magnesium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: F.53, K.56, L.57, E.60 Chain B: K.95 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:F.53, B:K.95 GOL.2: 8 residues within 4Å: Chain A: A.24, Q.25, I.26, V.128, R.140, T.142 Chain D: C.3, A.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.26, A:I.26, A:T.142 Water bridges: A:T.142 GOL.3: 4 residues within 4Å: Chain B: Y.4, N.5, F.8, E.60 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.5 GOL.4: 9 residues within 4Å: Chain A: R.50 Chain B: L.96, K.97, Q.100, L.134, N.135, D.136 Chain F: G.1, A.2 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:K.97, B:K.97, B:Q.100, B:L.134, B:D.136, B:D.136 Water bridges: A:R.50, A:R.50 GOL.5: 7 residues within 4Å: Chain B: Q.37, L.38, S.39, S.78, I.80 Chain C: A.3, A.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.37, B:S.39 Water bridges: B:L.40, B:L.40

3 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 10 residues within 4Å: Chain A: G.18, D.19 Chain B: G.18, D.19 Chain C: A.14 Chain D: G.1 Chain E: C.14 Chain F: G.1 Ligands: MG.7, MG.8 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:D.19, B:D.19 MG.7: 5 residues within 4Å: Chain A: G.18 Chain B: D.19 Chain D: G.1 Chain E: C.14 Ligands: MG.6 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:D.19, A:G.18, H2O.1 MG.8: 6 residues within 4Å: Chain A: D.19 Chain B: G.18 Chain C: G.13, A.14 Chain F: G.1 Ligands: MG.6 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:D.19, B:G.18, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Valton, J. et al., 5'-Cytosine-Phosphoguanine (Cpg) Methylation Impacts the Activity of Natural and Engineered Meganucleases. J.Biol.Chem. (2012)

Release Date

2012-07-04

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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