7QBF image
Entry Detail
PDB ID:
7QBF
Title:
TC:CD320 in complex with nanobody TC-Nb34
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2021-11-19
Release Date:
2022-03-16
Method Details:
Experimental Method:
Resolution:
1.85 Å
R-Value Free:
0.20
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
P 43 21 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Transcobalamin-2
Chain IDs:A
Chain Length:409
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Anti-transcobalamin-2 nanobody TC-Nb34
Chain IDs:C (auth: B)
Chain Length:137
Number of Molecules:1
Biological Source:Vicugna pacos
Polymer Type:polypeptide(L)
Description:CD320 antigen
Chain IDs:B (auth: C)
Chain Length:147
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Generation of nanobodies targeting the human, transcobalamin-mediated vitamin B 12 uptake route.
Faseb J. 36 e22222 e22222 (2022)
PMID: 35218573 DOI: 10.1096/fj.202101376RR

Abstact

Cellular uptake of vitamin B12 in humans is mediated by the endocytosis of the B12 carrier protein transcobalamin (TC) via its cognate cell surface receptor TCblR, encoded by the CD320 gene. Because CD320 expression is associated with the cell cycle and upregulated in highly proliferating cells including cancer cells, this uptake route is a potential target for cancer therapy. We developed and characterized four camelid nanobodies that bind holo-TC (TC in complex with B12) or the interface of the human holo-TC:TCblR complex with nanomolar affinities. We determined X-ray crystal structures of these nanobodies bound to holo-TC:TCblR, which enabled us to map their binding epitopes. When conjugated to the model toxin saporin, three of our nanobodies caused growth inhibition of HEK293T cells and therefore have the potential to inhibit the growth of human cancer cells. We visualized the cellular binding and endocytic uptake of the most potent nanobody (TC-Nb4) using fluorescent light microscopy. The co-crystal structure of holo-TC:TCblR with another nanobody (TC-Nb34) revealed novel features of the interface of TC and the LDLR-A1 domain of TCblR, rationalizing the decrease in the affinity of TC-B12 binding caused by the Δ88 mutation in CD320.

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Primary Citation of related structures