› 3o6e

X-ray diffraction
2.9Å resolution

Crystal Structure of human Hiwi1 PAZ domain (residues 277-399) in complex with 14-mer RNA (12-bp + 2-nt overhang) containing 2'-OCH3 at its 3'-end

Released:
DOI: 10.2210/pdb3o6e/pdb
PDB entry 3o6e coloured by chain, front view.
PDB entry 3o6e coloured by chain, side view.
PDB entry 3o6e coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for piRNA 2'-O-methylated 3'-end recognition by Piwi PAZ (Piwi/Argonaute/Zwille) domains.
Tian Y, Simanshu DK, Ma JB, Patel DJ
Proc Natl Acad Sci U S A 108 903-10 (2011)
PMID: 21193640

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-188566 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Piwi-like protein 1 Chain: X
Molecule details ›
Chain: X
Length: 124 amino acids
Theoretical weight: 14.63 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q96J94 (Residues: 277-399; Coverage: 14%)
Gene names: HIWI, PIWIL1
Sequence domains: PAZ domain
Structure domains: paz domain
RNA (5'-R(*GP*CP*GP*AP*AP*UP*AP*UP*UP*CP*GP*CP*UP*(OMU))-3') Chain: A
Molecule details ›
Chain: A
Length: 14 nucleotides
Theoretical weight: 4.44 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

No bound ligands
2 modified residues:
Ligand MSE 2 x MSE
Ligand OMU 1 x OMU

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P4122
Unit cell:
a: 44.013Å b: 44.013Å c: 147.024Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.256 0.252 0.305
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

18 review citations

PIWI-interacting RNAs: small RNAs with big functions.
Ozata et al. (2019)
17 more

4 mentions without citation

How RNA-Binding Proteins Interact with RNA: Molecules and Mechanisms.
Corley et al. (2020)
3 more