SMTL ID : 7qqw.1

SpCas9 bound to FANCF off-target4 DNA substrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

monomer

Ligands

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

MG.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.2: 1 residues within 4Å: Chain A: U.52 No protein-ligand interaction detected (PLIP)

10 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 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:T.1102, H2O.1, H2O.1 K.4: 2 residues within 4Å: Chain A: A.70 Chain B: Q.1350 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:Q.1350 K.5: 2 residues within 4Å: Chain B: E.57, T.1102 No protein-ligand interaction detected (PLIP) K.6: 5 residues within 4Å: Chain B: G.361, Y.362, G.365, G.366, A.367 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:G.365, B:A.367, H2O.4 K.7: 3 residues within 4Å: Chain B: T.624, Y.656, T.657 No protein-ligand interaction detected (PLIP) K.8: 3 residues within 4Å: Chain B: I.226, L.229, E.232 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:L.229, H2O.4 K.9: 2 residues within 4Å: Chain B: E.108, K.111 No protein-ligand interaction detected (PLIP) K.10: 3 residues within 4Å: Chain B: E.584, R.586, N.588 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.584, B:R.586, H2O.4, H2O.7 K.11: 5 residues within 4Å: Chain A: U.11, U.12 Chain C: G.18, G.19, A.20 No protein-ligand interaction detected (PLIP) K.12: 0 residues within 4Å: (No contacts) 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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