› 5m2i

X-ray diffraction
2.15Å resolution

Structure of human Tumor Necrosis Factor (TNF) in complex with the Llama VHH1

Released:
DOI: 10.2210/pdb5m2i/pdb
PDB entry 5m2i coloured by chain, front view.
PDB entry 5m2i coloured by chain, side view.
PDB entry 5m2i coloured by chain, top view.
Source organisms:
Primary publication:
Bivalent Llama Single-Domain Antibody Fragments against Tumor Necrosis Factor Have Picomolar Potencies due to Intramolecular Interactions.
Beirnaert E, Desmyter A, Spinelli S, Lauwereys M, Aarden L, Dreier T, Loris R, Silence K, Pollet C, Cambillau C, de Haard H
Front Immunol 8 867 (2017)
PMID: 28824615

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-208423 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Tumor necrosis factor, soluble form Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 157 amino acids
Theoretical weight: 17.37 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P01375 (Residues: 77-233; Coverage: 67%)
Gene names: TNF, TNFA, TNFSF2
Sequence domains: TNF(Tumour Necrosis Factor) family
Structure domains: Jelly Rolls
VHH1 Chains: G, H, I, J, K, L
Molecule details ›
Chains: G, H, I, J, K, L
Length: 121 amino acids
Theoretical weight: 13.42 KDa
Source organism: Lama glama
Expression system: Escherichia coli BL21
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-1
Spacegroup: P212121
Unit cell:
a: 110.33Å b: 117.41Å c: 141.89Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.208 0.207 0.238
Expression system: Escherichia coli BL21

Quick links

Citations

8 review citations

A New Venue of TNF Targeting.
Steeland et al. (2018)
7 more

3 mentions without citation

Bivalent Llama Single-Domain Antibody Fragments against Tumor Necrosis Factor Have Picomolar Potencies due to Intramolecular Interactions.
Beirnaert et al. (2017)
2 more