› 4ka9

X-ray diffraction
1.58Å resolution

Crystal structure analysis of single amino acid deletion mutations in EGFP

Released:
DOI: 10.2210/pdb4ka9/pdb
PDB entry 4ka9 coloured by chain, front view.
PDB entry 4ka9 coloured by chain, side view.
PDB entry 4ka9 coloured by chain, top view.
Source organism: Aequorea victoria
Primary publication:
Random single amino acid deletion sampling unveils structural tolerance and the benefits of helical registry shift on GFP folding and structure.
Arpino JA, Reddington SC, Halliwell LM, Rizkallah PJ, Jones DD
OpenAccess logo Structure 22 889-98 (2014)
PMID: 24856363

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-154537 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Green fluorescent protein Chain: A
Molecule details ›
Chain: A
Length: 236 amino acids
Theoretical weight: 26.9 KDa
Source organism: Aequorea victoria
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P42212 (Residues: 2-238; Coverage: 99%)
Gene name: GFP
Sequence domains: Green fluorescent protein
Structure domains: Green fluorescent protein

Ligands and Environments

4 bound ligands:
Ligand EDO 9 x EDO
Ligand EPE 1 x EPE
Ligand NA 2 x NA
Ligand ZN 2 x ZN
1 modified residue:
Ligand CRO 1 x CRO

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: C2
Unit cell:
a: 91.87Å b: 66.66Å c: 45.29Å
α: 90° β: 108.76° γ: 90°
R-values:
R R work R free
0.175 0.173 0.21
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

A review of visualisations of protein fold networks and their relationship with sequence and function.
Sykes et al. (2023)
26 other articles

3 mentions without citation

Random single amino acid deletion sampling unveils structural tolerance and the benefits of helical registry shift on GFP folding and structure.
Arpino et al. (2014)
2 more