Crystal structure of Ebolavirus glycoprotein in complex with clomipramine. Determined by X-ray diffraction at 2.19 Å resolution. Released 23 May 2018.
Explore 6G9I in 3D Show helices and sheets RCSB PDB PDBe
6G9I contains 12 α-helices and 27 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 | 36-39 | 4 | 1 |
| β-strand | 42-45 | 4 | 1 |
| α-helix | 46-47 | 2 | |
| α-helix | 60-62 | 3 | |
| β-strand | 63-69 | 7 | 1 |
| α-helix | 70-73 | 4 | |
| α-helix | 79-83 | 5 | |
| β-strand | 86-89 | 4 | 2 |
| β-strand | 96-98 | 3 | 1 |
| β-strand | 101-103 | 3 | 1 |
| β-strand | 105-114 | 10 | 3 |
| β-strand | 120 | 1 | 3 |
| α-helix | 123-126 | 4 | |
| β-strand | 135-144 | 10 | 3 |
| β-strand | 151-154 | 4 | 2 |
| β-strand | 159-161 | 3 | 1 |
| β-strand | 165-167 | 3 | 1 |
| β-strand | 169 | 1 | 2 |
| α-helix | 170-171 | 2 | |
| β-strand | 176 | 1 | 3 |
| β-strand | 177-185 | 9 | 1 |
| β-strand | 216-223 | 8 | 3 |
| β-strand | 231-237 | 7 | 3 |
| β-strand | 240-243 | 4 | 3 |
| α-helix | 250-263 | 14 | |
| β-strand | 273-275 | 3 | 3 |
| β-strand | 277 | 1 | 4 |
| β-strand | 307-309 | 3 | 4 |
| β-strand | 472-473 | 2 | 3 |
| β-strand | 474-476 | 3 | 4 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 503 | 1 | 1 |
| β-strand | 515-520 | 6 | 1 |
| α-helix | 539-541 | 3 | |
| β-strand | 543-548 | 6 | 1 |
| α-helix | 551-553 | 3 | |
| α-helix | 554-575 | 22 | |
| β-strand | 580-581 | 2 | 1 |
| α-helix | 584-597 | 14 | |
| α-helix | 613-620 | 8 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Envelope glycoprotein,Envelope glycoprotein | A | protein | 330 | Ebola virus - Mayinga, Zaire, 1976 | Q05320 (AlphaFold model) |
| Envelope glycoprotein,Envelope glycoprotein | B | protein | 168 | Ebola virus - Mayinga, Zaire, 1976, Human immunodeficiency virus 1 | Q05320 (AlphaFold model) |
>6G9I_1 Envelope glycoprotein,Envelope glycoprotein (chains A) ETGRSIPLGVIHNSALQVSDVDKLVCRDKLSSTNQLRSVGLNLEGNGVATDVPSATKRWG FRSGVPPKVVNYEAGEWAENCYNLEIKKPDGSECLPAAPDGIRGFPRCRYVHKVSGTGPC AGDFAFHKEGAFFLYDRLASTVIYRGTTFAEGVVAFLILPQAKKDFFSSHPLREPVNATE DPSSGYYSTTIRYQATGFGTNETEYLFEVDNLTYVQLESRFTPQFLLQLNETIYTSGKRS NTTGKLIWKVNPEIDTTIGEWAFWETKKNLTRKIRSEELSFTVVXXXXXXXSTHHQDTGE ESASSGKLGLITNTIAGVAGLITGGRRTRR
>6G9I_2 Envelope glycoprotein,Envelope glycoprotein (chains B) EAIVNAQPKCNPNLHYWTTQDEGAAIGLAWIPYFGPAAEGIYIEGLMHNQDGLICGLRQL ANETTQALQLFLRATTELRTFSILNRKAIDFLLQRWGGTCHILGPDCCIEPADWTKNITD KIDQIIHDFVDGSGYIPEAPRDGQAYVRKDGEWVLLSTFLGTHHHHHH
| ID | Name | Formula | Copies |
|---|---|---|---|
| NAG | 2-acetamido-2-deoxy-beta-D-glucopyranose | C8 H15 N O6 | 4 |
| CXX | 3-(3-chloro-5H-dibenzo[b,f]azepin-5-yl)-n,n-dimethylpropan-1-amine | C19 H23 Cl N2 | 1 |
Water and common crystallization additives (GOL) are not listed.
Structures of Ebola Virus Glycoprotein Complexes with Tricyclic Antidepressant and Antipsychotic Drugs. Zhao, Y., Ren, J., Fry, E.E. et al. J Med Chem (2018) 61:4938-4945. DOI 10.1021/acs.jmedchem.8b00350 · PubMed
Other PDB entries of the same protein (UniProt Q05320 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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