ISDA

Deposition Date 2005-09-09

Release Date 2005-11-29

Last Version Date 2024-10-09

Entry Detail

PDB ID:

2AZ5

Keywords:

CYTOKINE

Title:

Crystal Structure of TNF-alpha with a small molecule inhibitor

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.10 Å

R-Value Free:

0.27

R-Value Work:

0.22

R-Value Observed:

0.22

Space Group:

H 3

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Tumor necrosis factor (TNF-alpha) (Tumor necrosis factor ligand superfamily member 2) (TNF-a) (Cachectin) [Contains: Tumor necrosis factor, membrane form; Tumor necrosis factor, soluble form]
Gene (Uniprot):TNF
Chain IDs:A, B, C, D
Chain Length:148
Number of Molecules:4
Biological Source:Homo sapiens

UniProt ID:P01375 Pfam ID:PF00229

Ligand Molecules

307

Primary Citation

Small-molecule inhibition of TNF-alpha.

He, M.M, Smith, A.S, Oslob, J.D, Flanagan, W.M, Braisted, A.C, Whitty, A, Cancilla, M.T, Wang, J, Lugovskoy, A.A, Yoburn, J.C, Fung, A.D, Farrington, G, Eldredge, J.K, Day, E.S, Cruz, L.A, Cachero, T.G, Miller, S.K, Friedman, J.E, Choong, I.C, Cunningham, B.C.Show

Science 310 1022 1025 (2005)

PMID: 16284179 DOI: 10.1126/science.1116304

Abstact

We have identified a small-molecule inhibitor of tumor necrosis factor alpha (TNF-alpha) that promotes subunit disassembly of this trimeric cytokine family member. The compound inhibits TNF-alpha activity in biochemical and cell-based assays with median inhibitory concentrations of 22 and 4.6 micromolar, respectively. Formation of an intermediate complex between the compound and the intact trimer results in a 600-fold accelerated subunit dissociation rate that leads to trimer dissociation. A structure solved by x-ray crystallography reveals that a single compound molecule displaces a subunit of the trimer to form a complex with a dimer of TNF-alpha subunits.

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