› 6nud

Electron Microscopy
3.5Å resolution

Small conformation of ssRNA-bound CRISPR_Csm complex

Released:
DOI: 10.2210/pdb6nud/pdb
PDB entry 6nud coloured by chain, front view.
PDB entry 6nud coloured by chain, side view.
PDB entry 6nud coloured by chain, top view.
Source organism: Streptococcus thermophilus
Primary publication:
Coupling of ssRNA cleavage with DNase activity in type III-A CRISPR-Csm revealed by cryo-EM and biochemistry.
Guo M, Zhang K, Zhu Y, Pintilie GD, Guan X, Li S, Schmid MF, Ma Z, Chiu W, Huang Z
Cell Res 29 305-312 (2019)
PMID: 30814678
Related structures: EMD-0516

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
PDBe Complex ID:
PDB-CPX-100834 (preferred)
Entry contents:
4 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (6 distinct):
CRISPR system Cms protein Csm2 Chains: A, B, M
Molecule details ›
Chains: A, B, M
Length: 121 amino acids
Theoretical weight: 14.24 KDa
Source organism: Streptococcus thermophilus
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: A0A0A7HIX1 (Residues: 1-121; Coverage: 100%)
Gene name: csm2
Sequence domains: Csm2 Type III-A
CRISPR system Cms protein Csm4 Chain: I
Molecule details ›
Chain: I
Length: 299 amino acids
Theoretical weight: 33.79 KDa
Source organism: Streptococcus thermophilus
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: A0A0A7HGA1 (Residues: 1-299; Coverage: 100%)
Gene name: csm4
Sequence domains:
CRISPR system single-strand-specific deoxyribonuclease Cas10/Csm1 (subtype III-A) Chain: J
Molecule details ›
Chain: J
Length: 758 amino acids
Theoretical weight: 86.93 KDa
Source organism: Streptococcus thermophilus
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: A0A0A7HFE1 (Residues: 1-758; Coverage: 100%)
Gene names: cas10, csm1
Sequence domains:
CRISPR system Cms endoribonuclease Csm3 Chains: C, E, N, O, P
Molecule details ›
Chains: C, E, N, O, P
Length: 220 amino acids
Theoretical weight: 24.56 KDa
Source organism: Streptococcus thermophilus
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: A0A0A7HIF0 (Residues: 1-220; Coverage: 100%)
Gene name: csm3
Sequence domains: RAMP superfamily
crRNA Chain: H
Molecule details ›
Chain: H
Length: 72 nucleotides
Theoretical weight: 22.94 KDa
target ssRNA Chain: U
Molecule details ›
Chain: U
Length: 49 nucleotides
Theoretical weight: 15.98 KDa

Ligands and Environments

1 bound ligand:
Ligand ATP 1 x ATP
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.5Å
Relevant EMDB volumes: EMD-0516
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'

Quick links

Citations

1 review citation

Structure-based functional mechanisms and biotechnology applications of anti-CRISPR proteins.
Jia et al. (2021)
16 other articles

4 mentions without citation

Coupling of ssRNA cleavage with DNase activity in type III-A CRISPR-Csm revealed by cryo-EM and biochemistry.
Guo et al. (2019)
3 more