› 5ziq

X-ray diffraction
1.5Å resolution

Crystal structure of hexacoordinated heme protein from anhydrobiotic tardigrade at pH 4

Released:
DOI: 10.2210/pdb5ziq/pdb
PDB entry 5ziq coloured by chain, front view.
PDB entry 5ziq coloured by chain, side view.
PDB entry 5ziq coloured by chain, top view.
Source organism: Ramazzottius varieornatus
Primary publication:
Crystal structure of Kumaglobin: a hexacoordinated heme protein from an anhydrobiotic tardigrade, Ramazzottius varieornatus.
Kim J, Fukuda Y, Inoue T
FEBS J 286 1287-1304 (2019)
PMID: 30506636

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-103346 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Globin domain-containing protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 171 amino acids
Theoretical weight: 20.27 KDa
Source organism: Ramazzottius varieornatus
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: A0A1D1V896 (Residues: 37-190; Coverage: 81%)
Gene names: RvY_09119, RvY_09119-1, RvY_09119.1
Sequence domains: Globin

Ligands and Environments

3 bound ligands:
Ligand HEM 4 x HEM
Ligand SO4 7 x SO4
Ligand EDO 3 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL44XU
Spacegroup: P1
Unit cell:
a: 43.359Å b: 59.185Å c: 67.521Å
α: 115.36° β: 97.98° γ: 97.43°
R-values:
R R work R free
0.149 0.147 0.194
Expression system: Escherichia coli BL21

Quick links

Citations

2 citation in other articles

Architecture of Dispatched, a Transmembrane Protein Responsible for Hedgehog Release.
Luo et al. (2021)
1 more

1 mention without citation

Crystal structure of Kumaglobin: a hexacoordinated heme protein from an anhydrobiotic tardigrade, Ramazzottius varieornatus.
Kim et al. (2019)