› 3x1l

X-ray diffraction
2.1Å resolution

Crystal Structure of the CRISPR-Cas RNA Silencing Cmr Complex Bound to a Target Analog

Released:
DOI: 10.2210/pdb3x1l/pdb
PDB entry 3x1l coloured by chain, front view.
PDB entry 3x1l coloured by chain, side view.
PDB entry 3x1l coloured by chain, top view.
Source organisms:
Primary publication:
Crystal structure of the CRISPR-Cas RNA silencing Cmr complex bound to a target analog.
Osawa T, Inanaga H, Sato C, Numata T
Mol Cell 58 418-30 (2015)
PMID: 25921071

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
PDBe Complex ID:
PDB-CPX-117106 (preferred)
Entry contents:
5 distinct polypeptide molecules
1 distinct DNA molecule
1 distinct RNA molecule
Macromolecules (7 distinct):
CRISPR system Cmr subunit Cmr2 Chain: A
Molecule details ›
Chain: A
Length: 677 amino acids
Theoretical weight: 78.23 KDa
Source organism: Pyrococcus furiosus DSM 3638
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8U1S6 (Residues: 216-871; Coverage: 75%)
Gene names: PF1129, cmr2
Sequence domains:
CRISPR system Cmr subunit Cmr3 Chain: B
Molecule details ›
Chain: B
Length: 322 amino acids
Theoretical weight: 36.37 KDa
Source organism: Pyrococcus furiosus DSM 3638
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8U1S7 (Residues: 1-322; Coverage: 100%)
Gene names: PF1128, cmr3
Sequence domains: CRISPR-associated protein (Cas_Cmr3)
Structure domains:
Type III-B CRISPR module RAMP protein Cmr4 Chains: C, D, E
Molecule details ›
Chains: C, D, E
Length: 357 amino acids
Theoretical weight: 39.87 KDa
Source organism: Archaeoglobus fulgidus DSM 4304
Expression system: Escherichia coli
UniProt:
  • Canonical: O28416 (Residues: 1-355; Coverage: 100%)
Gene name: AF_1863
Sequence domains: RAMP superfamily
CRISPR system Cmr subunit Cmr5 Chains: F, G
Molecule details ›
Chains: F, G
Length: 155 amino acids
Theoretical weight: 17.41 KDa
Source organism: Archaeoglobus fulgidus DSM 4304
Expression system: Escherichia coli
UniProt:
  • Canonical: O28417 (Residues: 1-155; Coverage: 100%)
Gene names: AF_1862, cmr5
Sequence domains: CRISPR-associated protein (Cas_Cmr5)
Structure domains: AF1862-like domain
Type III-B CRISPR module RAMP protein Cmr6 Chain: H
Molecule details ›
Chain: H
Length: 349 amino acids
Theoretical weight: 40.3 KDa
Source organism: Archaeoglobus fulgidus DSM 4304
Expression system: Escherichia coli
UniProt:
  • Canonical: O28418 (Residues: 1-343; Coverage: 100%)
Gene name: AF_1861
Sequence domains: RAMP superfamily
DNA (5'-D(*TP*GP*CP*TP*CP*TP*CP*AP*GP*CP*CP*GP*CP*AP*AP*GP*GP*AP*CP*CP*GP*CP*AP*TP*AP*CP*TP*AP*CP*AP*A)-3') Chain: J
Molecule details ›
Chain: J
Length: 31 nucleotides
Theoretical weight: 9.45 KDa
RNA (32-MER) Chain: I
Molecule details ›
Chain: I
Length: 39 nucleotides
Theoretical weight: 12.6 KDa

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P1
Unit cell:
a: 75.489Å b: 76.215Å c: 139.188Å
α: 90.32° β: 104.83° γ: 118.58°
R-values:
R R work R free
0.21 0.208 0.246
Expression system: Escherichia coli

Quick links

Citations

23 review citations

An updated evolutionary classification of CRISPR-Cas systems.
Makarova et al. (2015)
22 more

10 mentions without citation

A Conserved Structural Chassis for Mounting Versatile CRISPR RNA-Guided Immune Responses.
Jackson et al. (2015)
9 more