› 3ogo

X-ray diffraction
2.8Å resolution

Structure of the GFP:GFP-nanobody complex at 2.8 A resolution in spacegroup P21212

Released:
DOI: 10.2210/pdb3ogo/pdb
PDB entry 3ogo coloured by chain, front view.
PDB entry 3ogo coloured by chain, side view.
PDB entry 3ogo coloured by chain, top view.
Source organisms:
Primary publication:
Structural and thermodynamic analysis of the GFP:GFP-nanobody complex.
Kubala MH, Kovtun O, Alexandrov K, Collins BM
Protein Sci 19 2389-401 (2010)
PMID: 20945358

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-211204 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Green fluorescent protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 247 amino acids
Theoretical weight: 28.09 KDa
Source organism: Aequorea victoria
Expression system: Escherichia coli
UniProt:
  • Canonical: P42212 (Residues: 2-238; Coverage: 100%)
Gene name: GFP
Sequence domains: Green fluorescent protein
Structure domains: Green fluorescent protein
GFP-nanobody Chains: E, F, G, H
Molecule details ›
Chains: E, F, G, H
Length: 123 amino acids
Theoretical weight: 13.82 KDa
Source organism: Camelus dromedarius
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments

1 bound ligand:
Ligand IPA 3 x IPA
1 modified residue:
Ligand CRO 4 x CRO

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E SUPERBRIGHT
Spacegroup: P21212
Unit cell:
a: 140.1Å b: 147.6Å c: 101.6Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.204 0.202 0.253
Expression system: Escherichia coli

Quick links

Citations

10 review citations

Applications of isothermal titration calorimetry in pure and applied research--survey of the literature from 2010.
Ghai et al. (2012)
9 more

41 mentions without citation

Nanobodies Right in the Middle: Intrabodies as Toolbox to Visualize and Modulate Antigens in the Living Cell.
Wagner et al. (2020)
40 more