Crystal structure of ricin A chain in complex with inhibitor 9-oxo-4-fluorenecarboxamide. Determined by X-ray diffraction at 1.54 Å resolution. Released 17 Jun 2020.
Explore 6URY in 3D Show helices and sheets RCSB PDB PDBe
6URY contains 36 α-helices and 30 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 |
|---|---|---|---|
| α-helix | 5-7 | 3 | |
| β-strand | 8-12 | 5 | 1 |
| α-helix | 18-32 | 15 | |
| β-strand | 38-39 | 2 | 2 |
| β-strand | 42-43 | 2 | 2 |
| β-strand | 44 | 1 | 3 |
| α-helix | 45-47 | 3 | |
| α-helix | 53-55 | 3 | |
| β-strand | 57-63 | 7 | 1 |
| β-strand | 69-75 | 7 | 1 |
| β-strand | 81-86 | 6 | 1 |
| β-strand | 89-92 | 4 | 1 |
| α-helix | 93-95 | 3 | |
| α-helix | 98-104 | 7 | |
| β-strand | 113-116 | 4 | 1 |
| α-helix | 123-130 | 8 | |
| α-helix | 134-136 | 3 | |
| β-strand | 139 | 1 | 4 |
| α-helix | 141-153 | 13 | |
| α-helix | 154-156 | 3 | |
| α-helix | 161-171 | 11 | |
| α-helix | 172-177 | 6 | |
| α-helix | 178-180 | 3 | |
| α-helix | 182-193 | 12 | |
| β-strand | 198 | 1 | 4 |
| α-helix | 199-201 | 3 | |
| α-helix | 202-219 | 18 | |
| β-strand | 222 | 1 | 5 |
| β-strand | 225-233 | 9 | 5 |
| β-strand | 239-244 | 6 | 5 |
| α-helix | 246-248 | 3 | |
| β-strand | 255 | 1 | 3 |
| α-helix | 261-264 | 4 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 5-7 | 3 | |
| β-strand | 8-12 | 5 | 6 |
| α-helix | 18-32 | 15 | |
| β-strand | 38-39 | 2 | 7 |
| β-strand | 42-43 | 2 | 7 |
| β-strand | 44 | 1 | 8 |
| α-helix | 45-47 | 3 | |
| α-helix | 53-55 | 3 | |
| β-strand | 57-63 | 7 | 6 |
| β-strand | 69-75 | 7 | 6 |
| β-strand | 81-86 | 6 | 6 |
| β-strand | 89-92 | 4 | 6 |
| α-helix | 93-95 | 3 | |
| α-helix | 98-104 | 7 | |
| β-strand | 113-116 | 4 | 6 |
| α-helix | 123-130 | 8 | |
| α-helix | 134-136 | 3 | |
| β-strand | 139 | 1 | 9 |
| α-helix | 141-153 | 13 | |
| α-helix | 154-156 | 3 | |
| α-helix | 161-171 | 11 | |
| α-helix | 172-177 | 6 | |
| α-helix | 178-180 | 3 | |
| α-helix | 182-193 | 12 | |
| β-strand | 198 | 1 | 9 |
| α-helix | 202-209 | 8 | |
| α-helix | 211-219 | 9 | |
| β-strand | 222 | 1 | 10 |
| β-strand | 225-233 | 9 | 10 |
| β-strand | 239-244 | 6 | 10 |
| α-helix | 245-248 | 4 | |
| β-strand | 255 | 1 | 8 |
| α-helix | 259-261 | 3 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Ricin | A, B | protein | 268 | Ricinus communis | P02879 (AlphaFold model) |
>6URY_1 Ricin (chains A, B) MIFPKQYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPINQRFIL VELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQNRYTFAF GGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQMISEAA RFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQRRNGSK FSVYDVSILIPIIALMVYRCAPPPSSQF
| ID | Name | Formula | Copies |
|---|---|---|---|
| R6T | 9-oxo-9H-fluorene-4-carboxamide | C14 H9 N O2 | 1 |
Water and common crystallization additives (EDO, CL) are not listed.
Small Molecule Inhibitors Targeting the Interaction of Ricin Toxin A Subunit with Ribosomes. Li, X.P., Harijan, R.K., Kahn, J.N. et al. ACS Infect Dis (2020) 6:1894-1905. DOI 10.1021/acsinfecdis.0c00127 · PubMed
Other PDB entries of the same protein (UniProt P02879 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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