SMTL ID : 6o7h.1

Cryo-EM structure of Csm-crRNA-target RNA ternary complex in complex with cA4 in type III-A CRISPR-Cas system

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.90 Å

Oligo State

hetero-1-1-2-1-1-mer

Ligands

1 x A- A- A- A: Cyclic DNA cA4(Non-covalent)

A-A-A-A.1: 27 residues within 4Å: Chain A: D.253, I.257, I.261, S.277, L.280, E.281, F.304, G.307, H.309, K.533, D.535, V.536, R.538, L.539, G.540, F.543, S.556, M.559, Y.598, G.601, D.602, D.603, D.659, K.662, R.666 Chain E: Y.90, K.94 Protein-ligand interaction information (PLIP) not available

3 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.403, C.406, C.427, C.430 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.403, A:C.406, A:C.427, A:C.430 ZN.3: 4 residues within 4Å: Chain C: H.113, C.115, C.124, C.127 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.113, C:C.115, C:C.124, C:C.127 ZN.4: 5 residues within 4Å: Chain D: H.113, C.115, C.124, V.126, C.127 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.113, D:C.115, D:C.124, D:C.127

1 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

5GP.5: 6 residues within 4Å: Chain A: D.642, R.644 Chain C: N.108 Chain E: I.143, F.145 Chain G: C.35 4 PLIP interactions: 1 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:N.108, A:R.644 Salt bridges: A:D.642, A:R.644

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jia, N. et al., Second Messenger cA4Formation within the Composite Csm1 Palm Pocket of Type III-A CRISPR-Cas Csm Complex and Its Release Path. Mol.Cell (2019)

Release Date

2019-07-31

Peptides

CRISPR system single-strand-specific deoxyribonuclease Cas10/Csm1 (subtype III-A): A
Csm2: B
Csm3: CD
Csm4: E
Csm5: H

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

H
F

CRISPR system single-strand-specific deoxyribonuclease Cas10/Csm1 (subtype III-A)

Csm2

Csm3

Csm4

Csm5

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