Capturing 5' tri-phosphorylated RNA duplex by RIG-I. Determined by X-ray diffraction at 2.8 Å resolution. Released 3 Oct 2012.
Explore 4AY2 in 3D Show helices and sheets RCSB PDB PDBe
4AY2 contains 32 α-helices and 28 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 |
|---|---|---|---|
| α-helix | 241-244 | 4 | |
| α-helix | 245-250 | 6 | |
| α-helix | 252-255 | 4 | |
| β-strand | 260-263 | 4 | 1 |
| α-helix | 270-283 | 14 | |
| α-helix | 286 | 1 | |
| β-strand | 287 | 1 | 2 |
| β-strand | 289 | 1 | 2 |
| β-strand | 293-296 | 4 | 1 |
| α-helix | 300-313 | 14 | |
| β-strand | 321-324 | 4 | 1 |
| α-helix | 334-339 | 6 | |
| β-strand | 343-346 | 4 | 1 |
| α-helix | 348-356 | 9 | |
| α-helix | 363-365 | 3 | |
| β-strand | 368-372 | 5 | 1 |
| α-helix | 374-376 | 3 | |
| α-helix | 382-395 | 14 | |
| β-strand | 404-409 | 6 | 1 |
| α-helix | 420-434 | 15 | |
| β-strand | 438-440 | 3 | 1 |
| α-helix | 446-451 | 6 | |
| α-helix | 456 | 1 | |
| β-strand | 457-462 | 6 | 3 |
| α-helix | 464-466 | 3 | |
| α-helix | 471-489 | 19 | |
| α-helix | 491-495 | 5 | |
| α-helix | 507-519 | 13 | |
| α-helix | 531-557 | 27 | |
| α-helix | 560-574 | 15 | |
| α-helix | 581-601 | 21 | |
| α-helix | 604-606 | 3 | |
| α-helix | 609-624 | 16 | |
| β-strand | 630-633 | 4 | 3 |
| α-helix | 637-648 | 12 | |
| α-helix | 651-653 | 3 | |
| β-strand | 658-660 | 3 | 3 |
| β-strand | 695-698 | 4 | 3 |
| β-strand | 711-715 | 5 | 3 |
| β-strand | 737-742 | 6 | 3 |
| α-helix | 745-768 | 24 | |
| α-helix | 773-793 | 21 | |
| β-strand | 802 | 1 | 4 |
| β-strand | 806-810 | 5 | 5 |
| β-strand | 816-819 | 4 | 5 |
| α-helix | 820-822 | 3 | |
| β-strand | 823-826 | 4 | 6 |
| β-strand | 830-833 | 4 | 6 |
| α-helix | 836-838 | 3 | |
| β-strand | 842-846 | 5 | 7 |
| β-strand | 856-864 | 9 | 7 |
| β-strand | 872-879 | 8 | 7 |
| β-strand | 882-887 | 6 | 7 |
| α-helix | 889-891 | 3 | |
| β-strand | 892-896 | 5 | 5 |
| β-strand | 902-903 | 2 | 5 |
| α-helix | 908-910 | 3 | |
| β-strand | 913 | 1 | 4 |
| β-strand | 916-917 | 2 | 6 |
| α-helix | 918 | 1 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| Probable ATP-dependent RNA helicase DDX58 | A | protein | 687 | HOMO SAPIENS | O95786 (AlphaFold model) |
| 5'-R-ppp(gp*gp*cp*gp*cp*gp*gp*cp*up*up*cp*gp*gp*cp *cp*gp*cp*gp*cp*c)-3' | C | RNA | 20 |
>4AY2_1 PROBABLE ATP-DEPENDENT RNA HELICASE DDX58 (chains A) SPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFAN QIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKG TIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAK NTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYIIAQL MRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRICKAL FLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQELE SVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKP GILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYV GNVIKMIQTRGRGRARGSKCFLLTSNAGVIEKEQINMYKEKMMNDSILRLQTWDEAVFRE KILHIQTHEKFIRDSQEKPKPVPDKENKKLLCRKCKALACYTADVRVIEDCHYTVLGDAF KECFVSRPHPKPKQFSSFEKRAKIFCARQNCSHDWGIHVKYKTFEIPVIKIESFVVEDIA TGVQTLYSKWKDFHFEKIPFDPAEMSK
>4AY2_2 5'-R-PPP(GP*GP*CP*GP*CP*GP*GP*CP*UP*UP*CP*GP*GP*CP *CP*GP*CP*GP*CP*C)-3' (chains C) GGCGCGGCUUCGGCCGCGCC
Visualizing the Determinants of Viral RNA Recognition by Innate Immune Sensor Rig-I. Luo, D., Kohlway, A., Vela, A. et al. Structure (2012) 20:1983. DOI 10.1016/J.STR.2012.08.029 · PubMed
Other PDB entries of the same protein (UniProt O95786 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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