› 6c6k

X-ray diffraction
2.54Å resolution

Structural basis for preferential recognition of cap 0 RNA by a human IFIT1-IFIT3 protein complex

Released:
DOI: 10.2210/pdb6c6k/pdb
PDB entry 6c6k coloured by chain, front view.
PDB entry 6c6k coloured by chain, side view.
PDB entry 6c6k coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Human IFIT3 Modulates IFIT1 RNA Binding Specificity and Protein Stability.
Johnson B, VanBlargan LA, Xu W, White JP, Shan C, Shi PY, Zhang R, Adhikari J, Gross ML, Leung DW, Diamond MS, Amarasinghe GK
Immunity 48 487-499.e5 (2018)
PMID: 29525521

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-219116 (preferred)
Entry contents:
2 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (3 distinct):
Interferon-induced protein with tetratricopeptide repeats 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 465 amino acids
Theoretical weight: 54.1 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P09914 (Residues: 7-471; Coverage: 97%)
Gene names: G10P1, IFI56, IFIT1, IFNAI1, ISG56
Sequence domains:
Interferon-induced protein with tetratricopeptide repeats 3 Chains: C, D
Molecule details ›
Chains: C, D
Length: 44 amino acids
Theoretical weight: 4.99 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O14879 (Residues: 416-459; Coverage: 9%)
Gene names: CIG-49, IFI60, IFIT3, IFIT4, ISG60
Sequence domains: Tetratricopeptide repeat
RNA (5'-R((M7G)*P*AP*UP*AP*GP*GP*CP*GP*GP*CP*G)-3') Chains: E, F
Molecule details ›
Chains: E, F
Length: 11 nucleotides
Theoretical weight: 3.7 KDa

Ligands and Environments

1 bound ligand:
Ligand MG 4 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P1
Unit cell:
a: 51.957Å b: 80.484Å c: 88.054Å
α: 79.82° β: 78.81° γ: 90.04°
R-values:
R R work R free
0.172 0.169 0.237
Expression system: Escherichia coli

Quick links

Citations

19 review citations

Regulation of Viral Infection by the RNA Modification N6-Methyladenosine.
Williams et al. (2019)
18 more

2 mentions without citation

Methylation of viral mRNA cap structures by PCIF1 attenuates the antiviral activity of interferon-β.
Tartell et al. (2021)
1 more