SMTL ID : 5xh7.1

Crystal structure of the Acidaminococcus sp. BV3L6 Cpf1 RR variant in complex with crRNA and target DNA (TCCA PAM)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

5 x NA: SODIUM ION(Non-functional Binders)

NA.1: 2 residues within 4Å: Chain A: K.760 Chain B: A.16 No protein-ligand interaction detected (PLIP) NA.16: 3 residues within 4Å: Chain B: U.30, G.31 Chain C: C.13 No protein-ligand interaction detected (PLIP) NA.17: 1 residues within 4Å: Chain B: A.22 No protein-ligand interaction detected (PLIP) NA.18: 3 residues within 4Å: Chain B: U.36, G.37 Chain C: A.8 No protein-ligand interaction detected (PLIP) NA.22: 2 residues within 4Å: Chain C: A.9, G.10 No protein-ligand interaction detected (PLIP)

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 4 residues within 4Å: Chain A: Y.1072, T.1073, S.1074, K.1075 Ligand excluded by PLIP

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

EDO.3: 6 residues within 4Å: Chain A: H.980, V.983, D.984, L.1031 Chain B: G.17, A.18 Ligand excluded by PLIP EDO.4: 5 residues within 4Å: Chain A: V.16, S.17, K.18, D.1024 Chain B: G.20 Ligand excluded by PLIP EDO.5: 5 residues within 4Å: Chain A: T.5, Q.6, G.9, F.10, R.894 Ligand excluded by PLIP EDO.6: 10 residues within 4Å: Chain A: F.1082, V.1083, P.1085, M.1122, L.1132, P.1133, G.1134, W.1139, L.1302, Q.1306 Ligand excluded by PLIP EDO.7: 5 residues within 4Å: Chain A: V.561, K.562, N.563, G.564, D.594 Ligand excluded by PLIP EDO.8: 4 residues within 4Å: Chain A: R.95, L.98, I.99, Q.102 Ligand excluded by PLIP EDO.9: 4 residues within 4Å: Chain A: V.561, D.594, F.726, F.772 Ligand excluded by PLIP EDO.10: 7 residues within 4Å: Chain A: R.21, K.533, R.793, F.873, H.875 Chain B: U.4, U.5 Ligand excluded by PLIP EDO.11: 6 residues within 4Å: Chain A: G.174, E.177, N.178 Chain B: A.23 Chain C: T.22, C.23 Ligand excluded by PLIP EDO.12: 4 residues within 4Å: Chain A: P.26, L.31, D.870, F.872 Ligand excluded by PLIP EDO.13: 6 residues within 4Å: Chain A: N.550, N.634, Y.690, T.691, K.692 Chain C: G.27 Ligand excluded by PLIP EDO.14: 4 residues within 4Å: Chain A: V.1250, F.1252, N.1258, W.1261 Ligand excluded by PLIP EDO.15: 4 residues within 4Å: Chain A: Q.27, K.562, Y.567, F.593 Ligand excluded by PLIP EDO.19: 5 residues within 4Å: Chain A: H.758 Chain B: C.11, U.12, U.15, A.16 Ligand excluded by PLIP EDO.20: 8 residues within 4Å: Chain A: T.19, Q.787, E.789, H.875, P.877 Chain B: G.20, G.21, A.22 Ligand excluded by PLIP EDO.21: 6 residues within 4Å: Chain A: L.810, K.812, Y.826 Chain B: A.1, C.9, U.10 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nishimasu, H. et al., Structural Basis for the Altered PAM Recognition by Engineered CRISPR-Cpf1. Mol. Cell (2017)

Release Date

2017-06-14

Peptides

CRISPR-associated endonuclease Cpf1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CRISPR-associated endonuclease Cpf1