SMTL ID : 7qr7.1

SpCas9 bound to AAVS1 off-target2 DNA substrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

monomer

Ligands

2 x MG: MAGNESIUM ION(Non-functional Binders)

MG.1: 1 residues within 4Å: Chain A: U.24 No protein-ligand interaction detected (PLIP) MG.2: 1 residues within 4Å: Chain A: U.52 No protein-ligand interaction detected (PLIP)

13 x K: POTASSIUM ION(Non-covalent)(Non-functional Binders)

K.3: 3 residues within 4Å: Chain A: A.67, U.68 Chain B: T.1102 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.1102, H2O.4 K.4: 3 residues within 4Å: Chain A: A.70 Chain B: T.1098, Q.1350 No protein-ligand interaction detected (PLIP) K.5: 2 residues within 4Å: Chain A: G.6, C.7 No protein-ligand interaction detected (PLIP) K.6: 1 residues within 4Å: Chain A: G.29 No protein-ligand interaction detected (PLIP) K.7: 2 residues within 4Å: Chain A: U.11, A.12 No protein-ligand interaction detected (PLIP) K.8: 1 residues within 4Å: Chain B: E.57 No protein-ligand interaction detected (PLIP) K.9: 5 residues within 4Å: Chain B: L.623, T.624, F.626, Y.656 Chain C: C.16 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:Y.656 K.10: 7 residues within 4Å: Chain A: U.24 Chain B: G.361, Y.362, G.365, G.366, A.367, K.401 No protein-ligand interaction detected (PLIP) K.11: 5 residues within 4Å: Chain B: I.226, L.229, P.230, G.231, E.232 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:L.229, H2O.5 K.12: 2 residues within 4Å: Chain B: E.108, K.111 No protein-ligand interaction detected (PLIP) K.13: 3 residues within 4Å: Chain B: E.584, R.586, N.588 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.584, H2O.3 K.14: 2 residues within 4Å: Chain A: G.23 Chain C: A.9 No protein-ligand interaction detected (PLIP) K.15: 3 residues within 4Å: Chain A: C.17 Chain C: T.13, G.14 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pacesa, M. et al., Structural basis for Cas9 off-target activity. Cell (2022)

Release Date

2022-10-26

Peptides

CRISPR-associated endonuclease Cas9/Csn1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

B
B

CRISPR-associated endonuclease Cas9/Csn1

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