› 5xr0

X-ray diffraction
0.98Å resolution

Crystal structure of Notched-fin eelpout type III antifreeze protein A20T mutant (NFE6, AFP), P21 form

Released:
DOI: 10.2210/pdb5xr0/pdb
PDB entry 5xr0 coloured by chain, front view.
PDB entry 5xr0 coloured by chain, side view.
PDB entry 5xr0 coloured by chain, top view.
Source organism: Zoarces elongatus
Primary publication:
Polypentagonal ice-like water networks emerge solely in an activity-improved variant of ice-binding protein.
Mahatabuddin S, Fukami D, Arai T, Nishimiya Y, Shimizu R, Shibazaki C, Kondo H, Adachi M, Tsuda S
Proc Natl Acad Sci U S A 115 5456-5461 (2018)
PMID: 29735675

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176125 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ice-structuring protein Chain: A
Molecule details ›
Chain: A
Length: 67 amino acids
Theoretical weight: 7.04 KDa
Source organism: Zoarces elongatus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q53UJ4 (Residues: 23-88; Coverage: 100%)
Sequence domains: SAF domain
Structure domains: Antifreeze-like/N-acetylneuraminic acid synthase C-terminal domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P21
Unit cell:
a: 28.47Å b: 33.319Å c: 34.349Å
α: 90° β: 111.97° γ: 90°
R-values:
R R work R free
0.11 0.109 0.121
Expression system: Escherichia coli BL21(DE3)

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Citations

1 review citation

Divergent Mechanisms of Ice Growth Inhibition by Antifreeze Proteins.
Drori et al. (2024)
13 other articles

2 mentions without citation

Polypentagonal ice-like water networks emerge solely in an activity-improved variant of ice-binding protein.
Mahatabuddin et al. (2018)
1 more