› 4gn4

X-ray diffraction
1.86Å resolution

OBody AM2EP06 bound to hen egg-white lysozyme

Released:
DOI: 10.2210/pdb4gn4/pdb
PDB entry 4gn4 coloured by chain, front view.
PDB entry 4gn4 coloured by chain, side view.
PDB entry 4gn4 coloured by chain, top view.
Source organisms:
Primary publication:
Tracking molecular recognition at the atomic level with a new protein scaffold based on the OB-fold.
Steemson JD, Baake M, Rakonjac J, Arcus VL, Liddament MT
OpenAccess logo PLoS One 9 e86050 (2014)
PMID: 24465865

Function and Biology Details

Reaction catalysed: 
Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132855 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
OBody AM2EP06 Chain: B
Molecule details ›
Chain: B
Length: 108 amino acids
Theoretical weight: 11.85 KDa
Source organism: Pyrobaculum aerophilum
Expression system: Escherichia coli DH5[alpha]
Structure domains: Nucleic acid-binding proteins
Lysozyme C Chain: A
Molecule details ›
Chain: A
Length: 129 amino acids
Theoretical weight: 14.33 KDa
Source organism: Gallus gallus
UniProt:
  • Canonical: P00698 (Residues: 19-147; Coverage: 100%)
Gene name: LYZ
Sequence domains: C-type lysozyme/alpha-lactalbumin family
Structure domains: Lysozyme

Ligands and Environments

1 bound ligand:
Ligand GOL 5 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P212121
Unit cell:
a: 50.43Å b: 58.33Å c: 81.82Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.154 0.152 0.194
Expression system: Escherichia coli DH5[alpha]

Quick links

Citations

3 review citations

Challenges and opportunities for non-antibody scaffold drugs.
Vazquez-Lombardi et al. (2015)
2 more

1 mention without citation

Tracking molecular recognition at the atomic level with a new protein scaffold based on the OB-fold.
Steemson et al. (2014)