› 1bzq

X-ray diffraction
2.8Å resolution

COMPLEX OF A DROMEDARY SINGLE-DOMAIN VHH ANTIBODY FRAGMENT WITH RNASE A

Released:
DOI: 10.2210/pdb1bzq/pdb
PDB entry 1bzq coloured by chain, front view.
PDB entry 1bzq coloured by chain, side view.
PDB entry 1bzq coloured by chain, top view.
Source organisms:
Primary publication:
A single-domain antibody fragment in complex with RNase A: non-canonical loop structures and nanomolar affinity using two CDR loops.
Decanniere K, Desmyter A, Lauwereys M, Ghahroudi MA, Muyldermans S, Wyns L
Structure 7 361-70 (1999)
PMID: 10196124

Function and Biology Details

Reaction catalysed: 
(1a) an (RNA) containing cytidine = an (RNA)-3'-cytidine-2',3'-cyclophosphate + a 5'-hydroxy-ribonucleotide-3'-(RNA)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-225767 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ribonuclease pancreatic Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 124 amino acids
Theoretical weight: 13.71 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: P61823 (Residues: 27-150; Coverage: 100%)
Gene names: RNASE1, RNS1
Sequence domains: Pancreatic ribonuclease
Structure domains: Ribonuclease A-like domain
PROTEIN (ANTIBODY CAB-RN05) Chains: K, L, M, N
Molecule details ›
Chains: K, L, M, N
Length: 124 amino acids
Theoretical weight: 13.33 KDa
Source organism: Camelus dromedarius
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments

1 bound ligand:
Ligand PO4 4 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P1
Unit cell:
a: 66.52Å b: 66.82Å c: 69.34Å
α: 91.43° β: 117.34° γ: 97.33°
R-values:
R R work R free
0.222 0.222 0.282
Expression system: Escherichia coli

Quick links

Citations

21 review citations

Nanobodies: natural single-domain antibodies.
Muyldermans S. (2013)
20 more

17 mentions without citation

Research progress on unique paratope structure, antigen binding modes, and systematic mutagenesis strategies of single-domain antibodies.
Liu et al. (2022)
16 more