9DUM: Human PELP1-WDR18-TEX10 complex
Human PELP1-WDR18-TEX10 complex. Determined by electron microscopy at 3.56 Å resolution. Released 30 Apr 2025.
- Method
- Electron microscopy
- Resolution
- 3.56 Å
- Organism
- Homo sapiens
- Chains
- 6
- Atoms
- 22,662
- Mol. weight
- 443.88 kDa
- Released
- 30 Apr 2025
Explore 9DUM in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
9DUM contains 137 α-helices and 72 β-strands across 6 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.
Chain A: 4 helices, 30 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 6-10 | 5 | 1 |
| β-strand | 20-24 | 5 | 1 |
| β-strand | 30-34 | 5 | 1 |
| β-strand | 39-47 | 9 | 2 |
| β-strand | 51-56 | 6 | 2 |
| β-strand | 61-66 | 6 | 2 |
| β-strand | 72-78 | 7 | 2 |
| β-strand | 87-88 | 2 | 3 |
| β-strand | 95-96 | 2 | 3 |
| β-strand | 103-106 | 4 | 3 |
| β-strand | 113-117 | 5 | 3 |
| β-strand | 124-129 | 6 | 4 |
| β-strand | 136-140 | 5 | 4 |
| β-strand | 145-147 | 3 | 4 |
| α-helix | 150-154 | 5 | |
| β-strand | 167-168 | 2 | 4 |
| β-strand | 175-177 | 3 | 5 |
| β-strand | 190-193 | 4 | 5 |
| β-strand | 197-200 | 4 | 5 |
| β-strand | 210-213 | 4 | 5 |
| β-strand | 221-223 | 3 | 6 |
| β-strand | 229-232 | 4 | 6 |
| β-strand | 239 | 1 | 7 |
| β-strand | 242-243 | 2 | 6 |
| β-strand | 265 | 1 | 7 |
| β-strand | 272-277 | 6 | 8 |
| β-strand | 283-288 | 6 | 8 |
| β-strand | 293-297 | 5 | 8 |
| β-strand | 302-307 | 6 | 8 |
| β-strand | 316-320 | 5 | 1 |
| α-helix | 335-337 | 3 | |
| β-strand | 359 | 1 | 9 |
| α-helix | 372-375 | 4 | |
| α-helix | 377-387 | 11 | |
Chain B: 4 helices, 32 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 6-12 | 7 | 10 |
| β-strand | 20-24 | 5 | 10 |
| β-strand | 30-32 | 3 | 10 |
| β-strand | 44-47 | 4 | 11 |
| β-strand | 51-54 | 4 | 11 |
| β-strand | 61-62 | 2 | 12 |
| β-strand | 63-66 | 4 | 11 |
| β-strand | 77-78 | 2 | 12 |
| β-strand | 83-88 | 6 | 13 |
| β-strand | 95-99 | 5 | 13 |
| β-strand | 102 | 1 | 13 |
| β-strand | 105-106 | 2 | 13 |
| β-strand | 113-115 | 3 | 13 |
| β-strand | 124-129 | 6 | 14 |
| β-strand | 136-140 | 5 | 14 |
| β-strand | 145-147 | 3 | 14 |
| β-strand | 166-168 | 3 | 14 |
| β-strand | 175-177 | 3 | 15 |
| β-strand | 188-189 | 2 | 15 |
| β-strand | 192-193 | 2 | 15 |
| β-strand | 197-202 | 6 | 15 |
| β-strand | 208-213 | 6 | 15 |
| β-strand | 221-223 | 3 | 16 |
| β-strand | 229-232 | 4 | 16 |
| β-strand | 239-243 | 5 | 16 |
| α-helix | 256-258 | 3 | |
| β-strand | 264-265 | 2 | 16 |
| β-strand | 275-277 | 3 | 17 |
| β-strand | 284-286 | 3 | 17 |
| β-strand | 293-295 | 3 | 17 |
| β-strand | 305-307 | 3 | 17 |
| β-strand | 313-320 | 8 | 10 |
| α-helix | 323-326 | 4 | |
| β-strand | 357-359 | 3 | 18 |
| α-helix | 369-371 | 3 | |
| α-helix | 372-387 | 16 | |
Chain C: 27 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 66-75 | 10 | |
| α-helix | 98-100 | 3 | |
| α-helix | 105-117 | 13 | |
| α-helix | 121-138 | 18 | |
| α-helix | 145-162 | 18 | |
| α-helix | 166-175 | 10 | |
| α-helix | 177-185 | 9 | |
| α-helix | 192-205 | 14 | |
| α-helix | 208-213 | 6 | |
| α-helix | 214-223 | 10 | |
| α-helix | 230-240 | 11 | |
| α-helix | 243-245 | 3 | |
| α-helix | 257-274 | 18 | |
| α-helix | 307-326 | 20 | |
| β-strand | 334-336 | 3 | 18 |
| α-helix | 338-348 | 11 | |
| α-helix | 362-367 | 6 | |
| α-helix | 369-387 | 19 | |
| α-helix | 395-408 | 14 | |
| α-helix | 421-422 | 2 | |
| α-helix | 427-442 | 16 | |
| α-helix | 453-463 | 11 | |
| α-helix | 521-535 | 15 | |
| α-helix | 542-556 | 15 | |
| α-helix | 569-571 | 3 | |
| α-helix | 574-588 | 15 | |
| α-helix | 598-608 | 11 | |
| α-helix | 616-631 | 16 | |
Chain D: 28 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 63-65 | 3 | |
| α-helix | 66-76 | 11 | |
| α-helix | 94-97 | 4 | |
| α-helix | 105-117 | 13 | |
| α-helix | 121-138 | 18 | |
| α-helix | 145-161 | 17 | |
| α-helix | 166-171 | 6 | |
| α-helix | 172-176 | 5 | |
| α-helix | 177-185 | 9 | |
| α-helix | 192-204 | 13 | |
| α-helix | 214-223 | 10 | |
| α-helix | 230-240 | 11 | |
| α-helix | 255-278 | 24 | |
| α-helix | 308-326 | 19 | |
| β-strand | 334 | 1 | 9 |
| α-helix | 338-348 | 11 | |
| α-helix | 362-367 | 6 | |
| α-helix | 369-387 | 19 | |
| α-helix | 389-392 | 4 | |
| α-helix | 395-405 | 11 | |
| α-helix | 421-422 | 2 | |
| α-helix | 425-442 | 18 | |
| α-helix | 459-463 | 5 | |
| α-helix | 521-535 | 15 | |
| α-helix | 542-556 | 15 | |
| α-helix | 577-588 | 12 | |
| α-helix | 598-606 | 9 | |
| α-helix | 615-626 | 12 | |
| α-helix | 627-629 | 3 | |
Chain G: 32 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 265-268 | 4 | 5 |
| α-helix | 269-273 | 5 | |
| β-strand | 281 | 1 | 20 |
| β-strand | 286 | 1 | 20 |
| α-helix | 430-437 | 8 | |
| α-helix | 440-442 | 3 | |
| α-helix | 459-470 | 12 | |
| α-helix | 476-492 | 17 | |
| α-helix | 496-499 | 4 | |
| α-helix | 500-511 | 12 | |
| α-helix | 517-531 | 15 | |
| α-helix | 546-553 | 8 | |
| α-helix | 555-561 | 7 | |
| α-helix | 567-572 | 6 | |
| α-helix | 575-581 | 7 | |
| α-helix | 588-594 | 7 | |
| α-helix | 596-599 | 4 | |
| α-helix | 614-619 | 6 | |
| α-helix | 630-641 | 12 | |
| α-helix | 647-650 | 4 | |
| α-helix | 653-659 | 7 | |
| α-helix | 677-688 | 12 | |
| α-helix | 693-699 | 7 | |
| β-strand | 719 | 1 | 21 |
| α-helix | 733-742 | 10 | |
| α-helix | 746-760 | 15 | |
| β-strand | 768 | 1 | 21 |
| α-helix | 771-780 | 10 | |
| α-helix | 794-809 | 16 | |
| α-helix | 817-819 | 3 | |
| α-helix | 823-835 | 13 | |
| α-helix | 837-844 | 8 | |
| α-helix | 857-867 | 11 | |
| α-helix | 871-873 | 3 | |
| α-helix | 874-879 | 6 | |
| α-helix | 881-894 | 14 | |
| α-helix | 902-914 | 13 | |
Chain H: 42 helices, 3 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 59-66 | 8 | |
| α-helix | 71-87 | 17 | |
| α-helix | 90-94 | 5 | |
| α-helix | 96-103 | 8 | |
| α-helix | 112-125 | 14 | |
| α-helix | 135-137 | 3 | |
| α-helix | 138-149 | 12 | |
| α-helix | 154-170 | 17 | |
| α-helix | 172-175 | 4 | |
| α-helix | 181-190 | 10 | |
| α-helix | 222-243 | 22 | |
| α-helix | 314-335 | 22 | |
| α-helix | 354-370 | 17 | |
| α-helix | 377-389 | 13 | |
| α-helix | 390-394 | 5 | |
| α-helix | 432-443 | 12 | |
| α-helix | 454-469 | 16 | |
| α-helix | 476-492 | 17 | |
| α-helix | 496-510 | 15 | |
| α-helix | 517-531 | 15 | |
| α-helix | 546-553 | 8 | |
| α-helix | 555-561 | 7 | |
| α-helix | 567-581 | 15 | |
| α-helix | 586-599 | 14 | |
| α-helix | 614-620 | 7 | |
| α-helix | 621-624 | 4 | |
| α-helix | 630-641 | 12 | |
| α-helix | 648-659 | 12 | |
| α-helix | 678-688 | 11 | |
| α-helix | 693-701 | 9 | |
| β-strand | 708-709 | 2 | 19 |
| β-strand | 717-719 | 3 | 19 |
| α-helix | 723-731 | 9 | |
| α-helix | 733-741 | 9 | |
| α-helix | 746-760 | 15 | |
| β-strand | 766-768 | 3 | 19 |
| α-helix | 771-781 | 11 | |
| α-helix | 794-809 | 16 | |
| α-helix | 823-835 | 13 | |
| α-helix | 837-845 | 9 | |
| α-helix | 854-856 | 3 | |
| α-helix | 857-869 | 13 | |
| α-helix | 875-878 | 4 | |
| α-helix | 882-892 | 11 | |
| α-helix | 904-909 | 6 | |
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| WD repeat-containing protein 18 | A, B | protein | 434 | Homo sapiens | Q9BV38 (AlphaFold model) |
| Proline-, glutamic acid- and leucine-rich protein 1 | C, D | protein | 644 | Homo sapiens | Q8IZL8 (AlphaFold model) |
| Testis-expressed protein 10 | G, H | protein | 931 | Homo sapiens | Q9NXF1 (AlphaFold model) |
Sequence of entity 1 (A, B), FASTA
>9DUM_1 WD repeat-containing protein 18 (chains A, B)
SNMAAPMEVAVCTDSAAPMWSCIVWELHSGANLLTYRGGQAGPRGLALLNGEYLLAAQLG
KNYISAWELQRKDQLQQKIMCPGPVTCLTASPNGLYVLAGVAESIHLWEVSTGNLLVILS
RHYQDVSCLQFTGDSSHFISGGKDCLVLVWSLCSVLQADPSRIPAPRHVWSHHALPITDL
HCGFGGPLARVATSSLDQTVKLWEVSSGELLLSVLFDVSIMAVTMDLAEHHMFCGGSEGS
IFQVDLFTWPGQRERSFHPEQDAGKVFKGHRNQVTCLSVSTDGSVLLSGSHDETVRLWDV
QSKQCIRTVALKGPVTNAAILLAPVSMLSSDFRPSLPLPHFNKHLLGAEHGDEPRHGGLT
LRLGLHQQGSEPSYLDRTEQLQAVLCSTMEKSVLGGQDQLRVRVTELEDEVRNLRKINRD
LFDFSTRFITRPAK
Sequence of entity 2 (C, D), FASTA
>9DUM_2 Proline-, glutamic acid- and leucine-rich protein 1 (chains C, D)
SNMAAAVLSGPSAGSAAGVPGGTGGLSAVSSGPRLRLLLLESVSGLLQPRTGSAVAPVHP
PNRSAPHLPGLMCLLRLHGSVGGAQNLSALGALVSLSNARLSSIKTRFEGLCLLSLLVGE
SPTELFQQHCVSWLRSIQQVLQTQDPPATMELAVAVLRDLLRYAAQLPALFRDISMNHLP
GLLTSLLGLRPECEQSALEGMKACMTYFPRACGSLKGKLASFFLSRVDALSPQLQQLACE
CYSRLPSLGAGFSQGLKHTESWEQELHSLLASLHTLLGALYEGAETAPVQNEGPGVEMLL
SSEDGDAHVLLQLRQRFSGLARCLGLMLSSEFGAPVSVPVQEILDFICRTLSVSSKNISL
HGDGPLRLLLLPSIHLEALDLLSALILACGSRLLRFGILIGRLLPQVLNSWSIGRDSLSP
GQERPYSTVRTKVYAILELWVQVCGASAGMLQGGASGEALLTHLLSDISPPADALKLRSP
RGSPDGSLQTGKPSAPKKLKLDVGEAMAPPSHRKGDSNANSDVCAAALRGLSRTILMCGP
LIKEETHRRLHDLVLPLVMGVQQGEVLGSSPYTSSRCRRELYCLLLALLLAPSPRCPPPL
ACALQAFSLGQREDSLEVSSFCSEALVTCAALTHPRVPPLQPMG
Sequence of entity 3 (G, H), FASTA
>9DUM_3 Testis-expressed protein 10 (chains G, H)
SNMTKKRKRQHDFQKVKLKVGKKKPKLQNATPTNFKTKTIHLPEQLKEDGTLPTNNRKLN
IKDLLSQMHHYNAGVKQSALLGLKDLLSQYPFIIDAHLSNILSEVTAVFTDKDANVRLAA
VQLLQFLAPKIRAEQISPFFPLVSAHLSSAMTHITEGIQEDSLKVLDILLEQYPALITGR
SSILLKNFVELISHQQLSKGLINRDRSQSWILSVNPNRRLTSQQWRLKVLVRLSKFLQAL
ADGSSRLRESEGLQEQKENPHATSNSIFINWKEHANDQQHIQVYENGGSQPNVSSQFRLR
YLVGGLSGVDEGLSSTENLKGFIEIIIPLLIECWVEAVPPQLATPVGNGIEREPLQVMQQ
VLNIISLLWKLSKQQDETHKLESWLRKNYLIDFKHHFMSRFPYVLKEITKHKRKEPNKSI
KHCTVLSNNIDHLLLNLTLSDIMVSLANASTLQKDCSWIEMIRKFVTETLEDGSRLNSKQ
LNRLLGVSWRLMQIQPNREDTETLIKAVYTLYQQRGLILPVRTLLLKFFSKIYQTEELRS
CRFRYRSKVLSRWLAGLPLQLAHLGSRNPELSTQLIDIIHTAAARANKELLKSLQATALR
IYDPQEGAVVVLPADSQQRLVQLVYFLPSLPADLLSRLSRCCIMGRLSSSLAAMLIGILH
MRSSFSGWKYSAKDWLMSDVDYFSFLFSTLTGFSKEELTWLQSLRGVPHVIQTQLSPVLL
YLTDLDQFLHHWDVTEAVFHSLLVIPARSQNFDILQSAISKHLVGLTVIPDSTAGCVFGV
ICKLLDHTCVVSETLLPFLASCCYSLLYFLLTIEKGEAEHLRKRDKLWGVCVSILALLPR
VLRLMLQSLRVNRVGPEELPVVGQLLRLLLQHAPLRTHMLTNAILVQQIIKNITTLKSGS
VQEQWLTDLHYCFNVYITGHPQGPSALATVY
Primary citation
Molecular insights into the overall architecture of human rixosome. Huang, J., Tong, L. Nat Commun (2025) 16:3288-3288. DOI 10.1038/s41467-025-58732-3 · PubMed
Other PDB entries of the same protein (UniProt Q9BV38 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 8FL3 2.53 Å, Human nuclear pre-60S ribosomal subunit (State I2)
- 9DUO 2.66 Å, Human PELP1-WDR18 complex
- 8FL2 2.67 Å, Human nuclear pre-60S ribosomal subunit (State I1)
- 7UWF 2.7 Å, Human Rix1 sub-complex scaffold
- 8FL4 2.89 Å, Human nuclear pre-60S ribosomal subunit (State I3)
Browse structure collections
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