SMTL ID : 6i1l.2 (1 other biounit)

Crystal structure of FnCas12a in complex with a crRNA guide and ssDNA target

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.98 Å

Oligo State

monomer

Ligands

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

MG.1: 3 residues within 4Å: Chain A: N.603, T.605, D.617 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.605, A:D.617, H2O.1, H2O.1, H2O.1 MG.2: 3 residues within 4Å: Chain A: D.793, R.801 Chain B: A.16 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:R.801, H2O.1, H2O.1, H2O.2, H2O.2 MG.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.12: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

6 x CIT: CITRIC ACID(Non-functional Binders)

CIT.4: 4 residues within 4Å: Chain A: Y.774, S.777, Q.781, K.783 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.774, A:K.783 Hydrogen bonds: A:S.777, A:Q.781, A:Q.781, A:Q.781 Salt bridges: A:K.783, A:K.783 CIT.5: 5 residues within 4Å: Chain A: R.19, R.834 Chain B: U.5 Ligands: K.8, K.16 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.19, A:K.596, A:R.834 CIT.6: 5 residues within 4Å: Chain A: K.132, G.175, W.176, T.177, T.178 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.175, A:T.177, A:T.178 Water bridges: A:D.617 Salt bridges: A:K.132 CIT.13: 4 residues within 4Å: Chain A: L.14, S.15 Chain B: A.20 Ligands: K.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.15 CIT.14: 6 residues within 4Å: Chain A: E.983, E.1034 Chain B: U.19, A.20, G.21 Ligands: K.16 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.1030 CIT.15: 4 residues within 4Å: Chain A: H.844, K.853, K.870 Chain B: A.1 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:H.844, A:K.853, A:K.870

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

K.7: 2 residues within 4Å: Chain A: R.44, S.172 No protein-ligand interaction detected (PLIP) K.8: 3 residues within 4Å: Chain A: H.882 Chain B: U.4 Ligands: CIT.5 No protein-ligand interaction detected (PLIP) K.9: 3 residues within 4Å: Chain A: S.158, D.159, T.161 No protein-ligand interaction detected (PLIP) K.10: 3 residues within 4Å: Chain A: W.176, S.604, K.636 No protein-ligand interaction detected (PLIP) K.11: 3 residues within 4Å: Chain A: E.1034 Chain B: A.20 Ligands: CIT.13 No protein-ligand interaction detected (PLIP) K.16: 4 residues within 4Å: Chain B: U.5, C.6 Ligands: CIT.5, CIT.14 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
D

CRISPR-associated endonuclease Cas12a

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