› 5bnh

X-ray diffraction
1.7Å resolution

Crystal structure of the HLTF HIRAN domain with a ssDNA fragment

Released:
DOI: 10.2210/pdb5bnh/pdb
PDB entry 5bnh coloured by chain, front view.
PDB entry 5bnh coloured by chain, side view.
PDB entry 5bnh coloured by chain, top view.
Source organisms:
Entry authors: Neculai D, Walker JR, Weigelt J, Bountra C, Edwards AM, Arrowsmith CH, Dhe-Paganon S

Function and Biology Details

Reaction catalysed: 
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118431 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Helicase-like transcription factor Chains: A, D
Molecule details ›
Chains: A, D
Length: 123 amino acids
Theoretical weight: 13.48 KDa
Source organism: Homo sapiens
Expression system: Enterobacteria phage L1
UniProt:
  • Canonical: Q14527 (Residues: 55-175; Coverage: 12%)
Gene names: HIP116A, HLTF, RNF80, SMARCA3, SNF2L3, ZBU1
Sequence domains: HIRAN domain
DNA (5'-D(*(GD)P*GP*TP*G)-3') Chain: B
Molecule details ›
Chain: B
Length: 3 nucleotides
Theoretical weight: 918 Da
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*(TD)P*TP*G)-3') Chain: C
Molecule details ›
Chain: C
Length: 3 nucleotides
Theoretical weight: 893 Da
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand NA 2 x NA
Ligand PO4 2 x PO4
Ligand ACT 4 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P212121
Unit cell:
a: 48.469Å b: 50.117Å c: 102.763Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.167 0.165 0.214
Expression systems:
  • Enterobacteria phage L1
  • Not provided

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