Crystal structure of Ricin A chain bound with (S)-2-(2-amino-4-oxo-3,4-dihydropteridine-7-carboxamido)-2-phenylacetic acid. Determined by X-ray diffraction at 1.35 Å resolution. Released 21 Dec 2022.
Explore 7Y03 in 3D Show helices and sheets RCSB PDB PDBe
7Y03 contains 18 α-helices and 17 β-strands across 1 chain. 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 | 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 | 80-86 | 7 | 1 |
| β-strand | 89-92 | 4 | 1 |
| α-helix | 93-95 | 3 | |
| α-helix | 98-103 | 6 | |
| α-helix | 104-106 | 3 | |
| β-strand | 113-116 | 4 | 1 |
| α-helix | 123-130 | 8 | |
| α-helix | 134-136 | 3 | |
| β-strand | 139 | 1 | 4 |
| α-helix | 141-152 | 12 | |
| α-helix | 154-156 | 3 | |
| α-helix | 161-172 | 12 | |
| α-helix | 173-177 | 5 | |
| α-helix | 178-180 | 3 | |
| β-strand | 181 | 1 | 5 |
| α-helix | 182-194 | 13 | |
| β-strand | 198 | 1 | 4 |
| α-helix | 199-201 | 3 | |
| α-helix | 202-220 | 19 | |
| β-strand | 222 | 1 | 6 |
| β-strand | 225-233 | 9 | 6 |
| β-strand | 239-244 | 6 | 6 |
| α-helix | 246-248 | 3 | |
| β-strand | 252 | 1 | 5 |
| β-strand | 255 | 1 | 3 |
| α-helix | 260-264 | 5 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Ricin A chain | A | protein | 274 | Ricinus communis | P02879 (AlphaFold model) |
>7Y03_1 Ricin A chain (chains A) MHHHHHHIFPKQYPIINFTTAGATVQSYTNFIRAVRGRLTTGADVRHEIPVLPNRVGLPI NQRFILVELSNHAELSVTLALDVTNAYVVGYRAGNSAYFFHPDNQEDAEAITHLFTDVQN RYTFAFGGNYDRLEQLAGNLRENIELGNGPLEEAISALYYYSTGGTQLPTLARSFIICIQ MISEAARFQYIEGEMRTRIRYNRRSAPDPSVITLENSWGRLSTAIQESNQGAFASPIQLQ RRNGSKFSVYDVSILIPIIALMVYRCAPPPSSQF
| ID | Name | Formula | Copies |
|---|---|---|---|
| IF4 | (2S)-2-[(2-azanyl-4-oxidanylidene-3H-pteridin-7-yl)carbonylamino]-2-phenyl-etha… | C15 H12 N6 O4 | 2 |
Water and common crystallization additives (SO4) are not listed.
Conformational change in ricin toxin A-Chain: A critical factor for inhibitor binding to the secondary pocket. Goto, M., Higashi, S., Ohba, T. et al. Biochem Biophys Res Commun (2022) 627:1-4. DOI 10.1016/j.bbrc.2022.08.008 · 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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