2TNF

1.4 A RESOLUTION STRUCTURE OF MOUSE TUMOR NECROSIS FACTOR, TOWARDS MODULATION OF ITS SELECTIVITY AND TRIMERISATION

Summary for 2TNF

• Entry DOI: 10.2210/pdb2tnf/pdb
• Descriptor: PROTEIN (TUMOR NECROSIS FACTOR ALPHA), 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ISOPROPYL ALCOHOL, ... (4 entities in total)
• Functional Keywords: lymphokine, cytokine, cytotoxin, transmembrane, glycoprotein, signal-anchor
• Biological source: Mus musculus (house mouse)
• Cellular location: Cell membrane; Single-pass type II membrane protein. Tumor necrosis factor, membrane form: Membrane ; Single-pass type II membrane protein . Tumor necrosis factor, soluble form: Secreted. C-domain 1: Secreted . C-domain 2: Secreted : P06804
• Total number of polymer chains: 3
• Total formula weight: 51999.72

Authors

Baeyens, K.J.,De Bondt, H.L.,Raeymaekers, A.,Fiers, W.,De Ranter, C.J. (deposition date: 1998-10-12, release date: 1999-10-12, Last modification date: 2024-10-30)

Primary citation

Baeyens, K.J.,De Bondt, H.L.,Raeymaekers, A.,Fiers, W.,De Ranter, C.J.
The structure of mouse tumour-necrosis factor at 1.4 A resolution: towards modulation of its selectivity and trimerization.
Acta Crystallogr.,Sect.D, 55:772-778, 1999

PubMed Abstract: The 1.4 A resolution structure of recombinant mouse tumour-necrosis factor alpha (mTNF) at 100 K has been determined. The crystals are triclinic, space group P1, with unit-cell parameters a = 48.06, b = 48.18, c = 51.01 A, alpha = 114.8, beta = 103.6, gamma = 91.1 degrees. The structure was refined to a final crystallographic R value of 19.7% (Rfree = 23.3%), including 3477 protein atoms, one 2-propanol molecule, one Tris molecule and 240 water molecules. Throughout the crystal lattice, the trimers are differently packed compared with human TNF, which was crystallized in the tetragonal space group P41212 and refined to 2.6 A resolution. The structures of mTNF and human TNF are very similar, diverging mainly in regions that are either flexible and/or involved in crystal packing. Some loops in mTNF which contain residues important for receptor binding are better resolved than in human TNF, such as the surface-exposed loops 30-34 and 144-147, which are also important for receptor specificity. Compared with human TNFs, the channel formed by the three monomers in mTNF is narrower. One 2-propanol molecule trapped in the trimeric channel could be a lead compound for the design of TNF inhibitors.

PubMed: 10089307
DOI: 10.1107/S0907444998018435

Experimental method

X-RAY DIFFRACTION (1.4 Å)