› 5j6y

X-ray diffraction
1.03Å resolution

Crystal structure of PA14 domain of MpAFP Antifreeze protein

Released:
DOI: 10.2210/pdb5j6y/pdb
PDB entry 5j6y coloured by chain, front view.
PDB entry 5j6y coloured by chain, side view.
PDB entry 5j6y coloured by chain, top view.
Source organism: Marinomonas primoryensis
Primary publication:
Structure of a 1.5-MDa adhesin that binds its Antarctic bacterium to diatoms and ice.
Guo S, Stevens CA, Vance TDR, Olijve LLC, Graham LA, Campbell RL, Yazdi SR, Escobedo C, Bar-Dolev M, Yashunsky V, Braslavsky I, Langelaan DN, Smith SP, Allingham JS, Voets IK, Davies PL
Sci Adv 3 e1701440 (2017)
PMID: 28808685

Function and Biology Details

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

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 Chain: A
Molecule details ›
Chain: A
Length: 188 amino acids
Theoretical weight: 20.08 KDa
Source organism: Marinomonas primoryensis
Expression system: Escherichia coli
UniProt:
  • Canonical: A1YIY3 (Residues: 716-903; Coverage: 12%)

Ligands and Environments

3 bound ligands:
Ligand CA 8 x CA
Ligand GLC 1 x GLC
Ligand BGC 1 x BGC
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: P212121
Unit cell:
a: 45.22Å b: 50.55Å c: 79.42Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.156 0.155 0.164
Expression system: Escherichia coli

Quick links

Citations

12 review citations

Tandem repeats lead to sequence assembly errors and impose multi-level challenges for genome and protein databases.
Tørresen et al. (2019)
11 more

2 mentions without citation

Structure and functional analysis of a bacterial adhesin sugar-binding domain.
Vance et al. (2019)
1 more