› 8dzk

X-ray diffraction
2.1Å resolution

Dbr1 in complex with 5-mer cleavage product

Released:
DOI: 10.2210/pdb8dzk/pdb
PDB 8dzk coloured by chain and viewed from the front.
PDB 8dzk coloured by chain and viewed from the side.
PDB 8dzk coloured by chain and viewed from the top.
Source organisms:
Entry authors: Clark NE, Taylor AB

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Lariat debranching enzyme Chains: A, B, C, D, E
Molecule details ›
Chains: A, B, C, D, E
Length: 356 amino acids
Theoretical weight: 41.21 KDa
Source organism: Entamoeba histolytica
Expression system: Escherichia coli
UniProt:
  • Canonical: C4M1P9 (Residues: 1-354; Coverage: 100%)
Gene names: DBR1, EHI_062730
Sequence domains: Calcineurin-like phosphoesterase
RNA (5'-R(P*(G46)P*UP*GP*UP*U)-3') Chains: F, G, N, O, P
Molecule details ›
Chains: F, G, N, O, P
Length: 5 nucleotides
Theoretical weight: 1.58 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand FE2 5 x FE2
Ligand ZN 5 x ZN
Ligand SO4 7 x SO4
1 modified residue:
Ligand G46 5 x G46

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P212121
Unit cell:
a: 73.272Å b: 143.341Å c: 214.006Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.179 0.178 0.209
Expression systems:
  • Escherichia coli
  • Not provided

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