60S ribosome biogenesis intermediate (Dbp10 catalytic structure - Low-pass filtered locally refined map). Determined by electron microscopy at 2.9 Å resolution. Released 1 May 2024.
Explore 8V85 in 3D Show helices and sheets RCSB PDB PDBe
8V85 contains 10 α-helices and 7 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 | 147-154 | 8 | |
| α-helix | 162-172 | 11 | |
| β-strand | 177-179 | 3 | 1 |
| α-helix | 189-198 | 10 | |
| β-strand | 210-213 | 4 | 1 |
| α-helix | 217-231 | 15 | |
| β-strand | 238-241 | 4 | 1 |
| α-helix | 247-255 | 9 | |
| β-strand | 260-263 | 4 | 1 |
| α-helix | 265-275 | 11 | |
| α-helix | 279-281 | 3 | |
| β-strand | 284-288 | 5 | 1 |
| α-helix | 290-296 | 7 | |
| α-helix | 299-308 | 10 | |
| β-strand | 314-318 | 5 | 1 |
| α-helix | 324-333 | 10 | |
| β-strand | 338-340 | 3 | 1 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| ATP-dependent RNA helicase DBP10 | 3 | protein | 995 | Saccharomyces cerevisiae BY4741 | Q12389 (AlphaFold model) |
>8V85_1 ATP-dependent RNA helicase DBP10 (chains 3) MAGVQKRKRDLEDQDDNGSEEDDIAFDIANEIALNDSESDANDSDSEVEADYGPNDVQDV IEYSSDEEEGVNNKKKAENKDIKKKKNSKKEIAAFPMLEMSDDENNASGKTQTGDDEDDV NEYFSTNNLEKTKHKKGSFPSFGLSKIVLNNIKRKGFRQPTPIQRKTIPLILQSRDIVGM ARTGSGKTAAFILPMVEKLKSHSGKIGARAVILSPSRELAMQTFNVFKDFARGTELRSVL LTGGDSLEEQFGMMMTNPDVIIATPGRFLHLKVEMNLDLKSVEYVVFDEADRLFEMGFQE QLNELLASLPTTRQTLLFSATLPNSLVDFVKAGLVNPVLVRLDAETKVSENLEMLFLSSK NADREANLLYILQEIIKIPLATSEQLQKLQNSNNEADSDSDDENDRQKKRRNFKKEKFRK QKMPAANELPSEKATILFVPTRHHVEYISQLLRDCGYLISYIYGTLDQHARKRQLYNFRA GLTSILVVTDVAARGVDIPMLANVINYTLPGSSKIFVHRVGRTARAGNKGWAYSIVAENE LPYLLDLELFLGKKILLTPMYDSLVDVMKKRWIDEGKPEYQFQPPKLSYTKRLVLGSCPR LDVEGLGDLYKNLMSSNFDLQLAKKTAMKAEKLYYRTRTSASPESLKRSKEIISSGWDAQ NAFFGKNEEKEKLDFLAKLQNRRNKETVFEFTRNPDDEMAVFMKRRRKQLAPIQRKATER RELLEKERMAGLSHSIEDEILKGDDGETGYTVSEDALKEFEDADQLLEAQENENKKKKKP KSFKDPTFFLSHYAPAGDIQDKQLQITNGFANDAAQAAYDLNSDDKVQVHKQTATVKWDK KRKKYVNTQGIDNKKYIIGESGQKIAASFRSGRFDDWSKARNLKPLKVGSRETSIPSNLL EDPSQGPAANGRTVRGKFKHKQMKAPKMPDKHRDNYYSQKKKVEKALQSGISVKGYNNAP GLRSELKSTEQIRKDRIIAEKKRAKNARPSKKRKF
The DEAD-box ATPase Dbp10/DDX54 initiates peptidyl transferase center formation during 60S ribosome biogenesis. Cruz, V.E., Weirich, C.S., Peddada, N. et al. Nat Commun (2024) 15:3296-3296. DOI 10.1038/s41467-024-47616-7 · PubMed
Other PDB entries of the same protein (UniProt Q12389 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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