› 6jb9

X-ray diffraction
1.15Å resolution

Crystal structure of nanobody D3-L11 (unbound form)

Released:
DOI: 10.2210/pdb6jb9/pdb
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PDB entry 6jb9 coloured by chain, front view.
PDB entry 6jb9 coloured by chain, side view.
PDB entry 6jb9 coloured by chain, top view.
Source organism: Camelus dromedarius
Primary publication:
Structural and thermodynamic basis for the recognition of the substrate-binding cleft on hen egg lysozyme by a single-domain antibody.
Akiba H, Tamura H, Kiyoshi M, Yanaka S, Sugase K, Caaveiro JMM, Tsumoto K
OpenAccess logo Sci Rep 9 15481 (2019)
PMID: 31664051

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-214088 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nanobody D3-L11 Chain: A
Molecule details ›
Chain: A
Length: 128 amino acids
Theoretical weight: 13.88 KDa
Source organism: Camelus dromedarius
Expression system: Escherichia coli

Ligands and Environments

1 bound ligand:
Ligand SO4 4 x SO4
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P21
Unit cell:
a: 26.19Å b: 53.36Å c: 36.21Å
α: 90° β: 91.52° γ: 90°
R-values:
R R work R free
0.102 0.102 0.129
Expression system: Escherichia coli

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Citations

2 review citations

Ancient species offers contemporary therapeutics: an update on shark VNAR single domain antibody sequences, phage libraries and potential clinical applications.
English et al. (2020)
1 more

2 mentions without citation

Structural and thermodynamic basis for the recognition of the substrate-binding cleft on hen egg lysozyme by a single-domain antibody.
Akiba et al. (2019)
1 more

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