Protein-protein complex between 26S proteasome regulatory subunit RPN8, RPN11, and Ubiquitin S31. Determined by X-ray diffraction at 2.5 Å resolution. Released 6 Sept 2017.
Explore 5U4P in 3D Show helices and sheets RCSB PDB PDBe
5U4P contains 12 α-helices and 29 β-strands across 3 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 | 7-10 | 4 | 1 |
| α-helix | 12-24 | 13 | |
| β-strand | 34-40 | 7 | 1 |
| β-strand | 45-53 | 9 | 1 |
| β-strand | 56-58 | 3 | 2 |
| β-strand | 66-68 | 3 | 2 |
| α-helix | 70-83 | 14 | |
| β-strand | 88-94 | 7 | 1 |
| α-helix | 103-110 | 8 | |
| β-strand | 119-123 | 5 | 1 |
| β-strand | 134-143 | 10 | 1 |
| β-strand | 150-157 | 8 | 1 |
| β-strand | 159-161 | 3 | 1 |
| α-helix | 165-174 | 10 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 26-29 | 4 | 3 |
| α-helix | 31-44 | 14 | |
| β-strand | 50-59 | 10 | 3 |
| β-strand | 62-69 | 8 | 3 |
| β-strand | 73-76 | 4 | 4 |
| β-strand | 79-82 | 4 | 4 |
| α-helix | 86-97 | 12 | |
| β-strand | 103-110 | 8 | 3 |
| α-helix | 120-132 | 13 | |
| β-strand | 137-141 | 5 | 3 |
| β-strand | 147 | 1 | 5 |
| β-strand | 150 | 1 | 5 |
| β-strand | 153-158 | 6 | 3 |
| β-strand | 196-202 | 7 | 3 |
| α-helix | 207-213 | 7 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 2-7 | 6 | 6 |
| β-strand | 12-16 | 5 | 6 |
| β-strand | 22 | 1 | 7 |
| α-helix | 23-34 | 12 | |
| α-helix | 38-40 | 3 | |
| β-strand | 41-45 | 5 | 6 |
| β-strand | 48-49 | 2 | 6 |
| α-helix | 50-51 | 2 | |
| β-strand | 55 | 1 | 7 |
| α-helix | 56-59 | 4 | |
| β-strand | 66-71 | 6 | 6 |
| β-strand | 74-75 | 2 | 4 |
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| 26S proteasome regulatory subunit RPN8 | A | protein | 177 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Q08723 (AlphaFold model) |
| 26S proteasome regulatory subunit RPN11 | B | protein | 220 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P43588 (AlphaFold model) |
| Ubiquitin-40S ribosomal protein S31 | C | protein | 76 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P05759 (AlphaFold model) |
>5U4P_1 26S proteasome regulatory subunit RPN8 (chains A) MSLQHEKVTIAPLVLLSALDHYERTQTKENKRCVGVILGDANSSTIRVTNSFALPFEEDE KNSDVWFLDHNYIENMNEMCKKINAKEKLIGWYHSGPKLRASDLKINELFKKYTQNNPLL LIVDVKQQGVGLPTDAYVAIEQVKDDGTSTEKTFLHLPCTIEAEEAEEIGVEHLLRD
>5U4P_2 26S proteasome regulatory subunit RPN11 (chains B) GPERLQRLMMNSKVGSADTGRDDTKETVYISSIALLKMLKHGRAGVPMEVMGLMLGEFVD DYTVNVVDVFAMPQSGTGVSVEAVDDVFQAKMMDMLKQTGRDQMVVGWYHSHPGFGCWLS SVDVNTQKSFEQLNSRAVAVVVDPIQSVKGKVVIDAFRLIDTGALINNLEPRQTTSNTGL LNKANIQALIHGLNRHYYSLNIDYHKTAKETKMLMNLHKE
>5U4P_3 Ubiquitin-40S ribosomal protein S31 (chains C) MQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN IQKESTLHLVLRLRGG
| ID | Name | Formula | Copies |
|---|---|---|---|
| ZN | Zinc ion | Zn | 1 |
An AAA Motor-Driven Mechanical Switch in Rpn11 Controls Deubiquitination at the 26S Proteasome. Worden, E.J., Dong, K.C., Martin, A. Mol Cell (2017) 67:799-811.e8. DOI 10.1016/j.molcel.2017.07.023 · PubMed
Other PDB entries of the same protein (UniProt Q08723 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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