SMTL ID : 6i1k.1

Crystal structure of catalytically inactive FnCas12a in complex with a crRNA guide and a dsDNA target

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

11 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.1: 4 residues within 4Å: Chain A: D.794, R.802 Chain B: U.15, A.16 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:R.802, H2O.1, H2O.1, H2O.2, H2O.2 MG.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.3: 1 residues within 4Å: Chain A: N.702 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Chain A: E.829 No protein-ligand interaction detected (PLIP) MG.5: 5 residues within 4Å: Chain A: L.68, S.69, V.71, Y.250, N.272 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:S.69, H2O.1 MG.6: 5 residues within 4Å: Chain A: N.604, T.606, D.618, K.637 Chain D: C.5 No protein-ligand interaction detected (PLIP) MG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.8: 5 residues within 4Å: Chain A: F.155, K.156, N.158, I.161, T.162 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:F.155, A:I.161, A:T.162 MG.9: 4 residues within 4Å: Chain A: W.177, E.603, N.604, S.605 No protein-ligand interaction detected (PLIP) MG.15: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.16: 1 residues within 4Å: Chain B: A.25 No protein-ligand interaction detected (PLIP)

14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.10: 4 residues within 4Å: Chain A: E.758, N.761, Q.762, K.891 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.761, A:Q.762, A:K.891, A:K.891 EDO.11: 4 residues within 4Å: Chain A: S.14, F.890, S.892, S.893 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.14, A:S.14 EDO.12: 5 residues within 4Å: Chain A: K.34, G.37, L.38, I.39, L.40 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.37, A:I.39, A:L.40 EDO.13: 6 residues within 4Å: Chain A: I.306, N.307, K.319, K.322 Chain C: G.11, A.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.307 EDO.14: 6 residues within 4Å: Chain A: R.20, K.597, F.881, H.883 Chain B: U.4, U.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.20 EDO.17: 2 residues within 4Å: Chain B: U.23, U.24 No protein-ligand interaction detected (PLIP) EDO.18: 3 residues within 4Å: Chain B: A.27, A.28 Ligands: EDO.19 No protein-ligand interaction detected (PLIP) EDO.19: 3 residues within 4Å: Chain B: G.29 Ligands: EDO.18, EDO.21 No protein-ligand interaction detected (PLIP) EDO.20: 3 residues within 4Å: Chain B: U.37, A.38, U.39 No protein-ligand interaction detected (PLIP) EDO.21: 3 residues within 4Å: Chain B: G.29, G.30 Ligands: EDO.19 No protein-ligand interaction detected (PLIP) EDO.22: 1 residues within 4Å: Chain B: A.26 No protein-ligand interaction detected (PLIP) EDO.23: 1 residues within 4Å: Chain C: T.27 No protein-ligand interaction detected (PLIP) EDO.24: 2 residues within 4Å: Chain C: A.13, T.14 No protein-ligand interaction detected (PLIP) EDO.25: 5 residues within 4Å: Chain C: G.32, G.33, A.34 Chain D: T.3, C.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Swarts, D.C. et al., Mechanistic Insights into the cis- and trans-Acting DNase Activities of Cas12a. Mol. Cell (2019)

Release Date

2019-01-23

Peptides

CRISPR-associated endonuclease Cas12a: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CRISPR-associated endonuclease Cas12a

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