5F1K image
Deposition Date 2015-11-30
Release Date 2016-06-15
Last Version Date 2024-10-30
Entry Detail
PDB ID:
5F1K
Title:
human CD38 in complex with nanobody MU1053
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Lama glama (Taxon ID: 9844)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.30 Å
R-Value Free:
0.23
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase 1
Gene (Uniprot):CD38
Mutagens:Q49T, N100D, N164D, N219D, N209D
Chain IDs:A, B
Chain Length:256
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:nanobody MU1053
Chain IDs:C, D
Chain Length:159
Number of Molecules:2
Biological Source:Lama glama
Primary Citation
Immuno-targeting the multifunctional CD38 using nanobody
Sci Rep 6 27055 27055 (2016)
PMID: 27251573 DOI: 10.1038/srep27055

Abstact

CD38, as a cell surface antigen is highly expressed in several hematologic malignancies including multiple myeloma (MM) and has been proven to be a good target for immunotherapy of the disease. CD38 is also a signaling enzyme responsible for the metabolism of two novel calcium messenger molecules. To be able to target this multifunctional protein, we generated a series of nanobodies against CD38 with high affinities. Crystal structures of the complexes of CD38 with the nanobodies were solved, identifying three separate epitopes on the carboxyl domain. Chromobodies, engineered by tagging the nanobody with fluorescence proteins, provide fast, simple and versatile tools for quantifying CD38 expression. Results confirmed that CD38 was highly expressed in malignant MM cells compared with normal white blood cells. The immunotoxin constructed by splicing the nanobody with a bacterial toxin, PE38 shows highly selective cytotoxicity against patient-derived MM cells as well as the cell lines, with half maximal effective concentration reaching as low as 10(-11) molar. The effectiveness of the immunotoxin can be further increased by stimulating CD38 expression using retinoid acid. These results set the stage for the development of clinical therapeutics as well as diagnostic screening for myeloma.

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Primary Citation of related structures