› 1m8v

X-ray diffraction
2.6Å resolution

Structure of Pyrococcus abyssii Sm Protein in Complex with a Uridine Heptamer

Released:
DOI: 10.2210/pdb1m8v/pdb
PDB entry 1m8v coloured by chain, front view.
PDB entry 1m8v coloured by chain, side view.
PDB entry 1m8v coloured by chain, top view.
Source organism: Pyrococcus abyssi
Primary publication:
Crystal structures of the Pyrococcus abyssi Sm core and its complex with RNA. Common features of RNA binding in archaea and eukarya.
Thore S, Mayer C, Sauter C, Weeks S, Suck D
J Biol Chem 278 1239-47 (2003)
PMID: 12409299

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 21-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-194157 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Putative snRNP Sm-like protein Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J, K, L, M, N
Length: 77 amino acids
Theoretical weight: 8.63 KDa
Source organism: Pyrococcus abyssi
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9V0Y8 (Residues: 1-75; Coverage: 100%)
Gene names: PAB8160, PYRAB06500
Sequence domains: LSM domain
Structure domains: SH3 type barrels.
5'-R(P*UP*UP*UP*UP*UP*UP*U)-3' Chains: O, P, Q, R, S, T, U
Molecule details ›
Chains: O, P, Q, R, S, T, U
Length: 7 nucleotides
Theoretical weight: 2.1 KDa
Source organism: Pyrococcus abyssi
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand CA 7 x CA
Ligand U 14 x U
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P1
Unit cell:
a: 68Å b: 68Å c: 84.8Å
α: 105° β: 108.8° γ: 100°
R-values:
R R work R free
0.212 0.212 0.282
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

12 review citations

The bacterial Sm-like protein Hfq: a key player in RNA transactions.
Valentin-Hansen et al. (2004)
11 more

4 mentions without citation

Sm/Lsm genes provide a glimpse into the early evolution of the spliceosome.
Veretnik et al. (2009)
3 more