› 6l5n

X-ray diffraction
2.24Å resolution

Crystal structure of human DEAD-box RNA helicase DDX21 at post-unwound state

Released:
DOI: 10.2210/pdb6l5n/pdb
PDB entry 6l5n coloured by chain, front view.
PDB entry 6l5n coloured by chain, side view.
PDB entry 6l5n coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural Basis of Human Helicase DDX21 in RNA Binding, Unwinding, and Antiviral Signal Activation.
Chen Z, Li Z, Hu X, Xie F, Kuang S, Zhan B, Gao W, Chen X, Gao S, Li Y, Wang Y, Qian F, Ding C, Gan J, Ji C, Xu XW, Zhou Z, Huang J, He HH, Li J
Adv Sci (Weinh) 7 2000532 (2020)
PMID: 32714761

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192534 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Nucleolar RNA helicase 2 Chains: A, B
Molecule details ›
Chains: A, B
Length: 377 amino acids
Theoretical weight: 42.47 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9NR30 (Residues: 188-563; Coverage: 48%)
Gene name: DDX21
Sequence domains:
poly(U)-15mer Chains: C, D
Molecule details ›
Chains: C, D
Length: 15 nucleotides
Theoretical weight: 4.55 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand ANP 3 x ANP
Ligand MG 3 x MG
1 modified residue:
Ligand MSE 8 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P21
Unit cell:
a: 72.36Å b: 89.23Å c: 79.69Å
α: 90° β: 115.6° γ: 90°
R-values:
R R work R free
0.178 0.175 0.233
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

1 review citation

DEAD-Box RNA Helicases in Cell Cycle Control and Clinical Therapy.
Zhang et al. (2021)
16 other articles

4 mentions without citation

Structural Basis of Human Helicase DDX21 in RNA Binding, Unwinding, and Antiviral Signal Activation.
Chen et al. (2020)
3 more