› 3p4g

X-ray diffraction
1.7Å resolution

X-ray crystal structure of a hyperactive, Ca2+-dependent, beta-helical antifreeze protein from an Antarctic bacterium

Released:
DOI: 10.2210/pdb3p4g/pdb
PDB entry 3p4g coloured by chain, front view.
PDB entry 3p4g coloured by chain, side view.
PDB entry 3p4g coloured by chain, top view.
Source organism: Marinomonas primoryensis
Primary publication:
Anchored clathrate waters bind antifreeze proteins to ice.
Garnham CP, Campbell RL, Davies PL
Proc Natl Acad Sci U S A 108 7363-7 (2011)
PMID: 21482800

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-106747 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cadherin-like domain-containing protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 323 amino acids
Theoretical weight: 33.36 KDa
Source organism: Marinomonas primoryensis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A1YIY3 (Residues: 996-1318; Coverage: 21%)
Sequence domains: Bacterial antifreeze protein repeat
Structure domains: Pectate Lyase C-like

Ligands and Environments

3 bound ligands:
Ligand CA 52 x CA
Ligand MG 4 x MG
Ligand ACT 2 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X6A
Spacegroup: P1
Unit cell:
a: 57.5Å b: 70.78Å c: 84.25Å
α: 99.06° β: 92.3° γ: 97.47°
R-values:
R R work R free
0.165 0.164 0.2
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

20 review citations

Ice-binding proteins: a remarkable diversity of structures for stopping and starting ice growth.
Davies PL. (2014)
19 more

7 mentions without citation

Marine Antifreeze Proteins: Structure, Function, and Application to Cryopreservation as a Potential Cryoprotectant.
Kim et al. (2017)
6 more