Selection of a novel highly specific TNFalpha antagonist: Insight from the crystal structure of the antagonist-TNFalpha complex. Determined by X-ray diffraction at 2.1 Å resolution. Released 23 Feb 2010.
Explore 3L9J in 3D Show helices and sheets RCSB PDB PDBe
3L9J contains 6 α-helices and 25 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 49-50 | 2 | 1 |
| β-strand | 59-68 | 10 | 1 |
| α-helix | 70-79 | 10 | |
| β-strand | 83-84 | 2 | 1 |
| α-helix | 90-103 | 14 | |
| β-strand | 109-111 | 3 | 1 |
| β-strand | 114-115 | 2 | 2 |
| β-strand | 124-125 | 2 | 2 |
| β-strand | 129 | 1 | 3 |
| β-strand | 130 | 1 | 2 |
| α-helix | 131 | 1 | |
| β-strand | 136 | 1 | 1 |
| α-helix | 139-142 | 4 | |
| β-strand | 152-156 | 5 | 1 |
| β-strand | 163-166 | 4 | 1 |
| β-strand | 172-179 | 8 | 1 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 13-18 | 6 | 4 |
| β-strand | 28-29 | 2 | 4 |
| β-strand | 36-38 | 3 | 4 |
| β-strand | 42-44 | 3 | 5 |
| β-strand | 47-49 | 3 | 5 |
| β-strand | 54-67 | 14 | 4 |
| β-strand | 76-83 | 8 | 5 |
| β-strand | 90-98 | 9 | 5 |
| α-helix | 104-106 | 3 | |
| β-strand | 110 | 1 | 3 |
| β-strand | 113-126 | 14 | 4 |
| β-strand | 131-136 | 6 | 5 |
| α-helix | 139-141 | 3 | |
| β-strand | 142 | 1 | 4 |
| β-strand | 151-156 | 6 | 4 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| TNFalpha | C | protein | 134 | Homo sapiens | P05452 (AlphaFold model) |
| Tumor necrosis factor, soluble form | T | protein | 149 | Homo sapiens | P01375 (AlphaFold model) |
>3L9J_1 TNFalpha (chains C) LQTVCLKGTKHMKCFLAFTQTKTFHEASEDCISRGGTLSTPQTGSENDALYEYLRQSVGN EAEIWLGLNKRWSRYFWVDMTGTRIAYKNWEHSSDAQPDPSNWENCAVLSGAANGKWFGK RCRDQLPYICQFGI
>3L9J_2 Tumor necrosis factor, soluble form (chains T) SDKPVAHVVANPQAEGQLQWLNRRANALLANGVELRDNQLVVPSEGLYLIYSQVLFKGQG CPSTHVLLTHTISRIAVSYQTKVNLLSAIKSPCQRETPEGAEAKPWYEPIYLGGVFQLEK GDRLSAEINRPDYLDFAESGQVYFGIIAL
| ID | Name | Formula | Copies |
|---|---|---|---|
| MG | Magnesium ion | Mg | 1 |
Selection of a novel and highly specific TNF{alpha} antagonist: insight from the crystal structure of the antagonist-TNF{alpha} complex. Byla, P., Andersen, M.H., Holtet, T.L. et al. J Biol Chem (2010) 285:12096-12100. DOI 10.1074/jbc.M109.063305 · PubMed
Other PDB entries of the same protein (UniProt P05452 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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