8QPK: Pre-B+5'ss Complex
Cryo-EM Structure of Pre-B+5'ss Complex (core part). Determined by electron microscopy at 4.2 Å resolution. Released 22 May 2024.
- Method
- Electron microscopy
- Resolution
- 4.2 Å
- Organism
- Homo sapiens
- Chains
- 16
- Atoms
- 29,527
- Mol. weight
- 1339.6 kDa
- Ligands
- IHP
- Released
- 22 May 2024
Explore 8QPK in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
8QPK contains 203 α-helices and 142 β-strands across 12 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 7: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 457-458 | 2 | |
| α-helix | 459-472 | 14 | |
Chain A: 92 helices, 62 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 63-72 | 10 | |
| α-helix | 80-82 | 3 | |
| α-helix | 86-92 | 7 | |
| α-helix | 95-104 | 10 | |
| α-helix | 106-108 | 3 | |
| β-strand | 117-121 | 5 | 6 |
| β-strand | 127-129 | 3 | 6 |
| β-strand | 134-135 | 2 | 7 |
| α-helix | 137-157 | 21 | |
| α-helix | 178-182 | 5 | |
| β-strand | 220 | 1 | 8 |
| β-strand | 227-229 | 3 | 8 |
| α-helix | 232-242 | 11 | |
| α-helix | 252-254 | 3 | |
| α-helix | 260-267 | 8 | |
| α-helix | 277-278 | 2 | |
| α-helix | 286-289 | 4 | |
| α-helix | 291-292 | 2 | |
| β-strand | 293 | 1 | 9 |
| α-helix | 310-315 | 6 | |
| α-helix | 357-358 | 2 | |
| α-helix | 396-404 | 9 | |
| α-helix | 409-412 | 4 | |
| β-strand | 415-417 | 3 | 8 |
| β-strand | 419-420 | 2 | 7 |
| α-helix | 428-431 | 4 | |
| α-helix | 441-459 | 19 | |
| α-helix | 472-478 | 7 | |
| β-strand | 482-486 | 5 | 6 |
| α-helix | 489-508 | 20 | |
| β-strand | 516-518 | 3 | 10 |
| β-strand | 524-526 | 3 | 10 |
| α-helix | 532-537 | 6 | |
| α-helix | 542-565 | 24 | |
| α-helix | 571-589 | 19 | |
| α-helix | 591-594 | 4 | |
| α-helix | 598-616 | 19 | |
| α-helix | 631-656 | 26 | |
| α-helix | 677-696 | 20 | |
| α-helix | 704-721 | 18 | |
| α-helix | 733-763 | 31 | |
| α-helix | 769-797 | 29 | |
| α-helix | 805-820 | 16 | |
| α-helix | 823-825 | 3 | |
| α-helix | 835-847 | 13 | |
| α-helix | 858-872 | 15 | |
| α-helix | 874-886 | 13 | |
| β-strand | 894-900 | 7 | 11 |
| β-strand | 905-910 | 6 | 11 |
| α-helix | 913-933 | 21 | |
| β-strand | 940 | 1 | 12 |
| β-strand | 943 | 1 | 13 |
| β-strand | 946 | 1 | 13 |
| α-helix | 948-961 | 14 | |
| α-helix | 967-970 | 4 | |
| β-strand | 972-980 | 9 | 12 |
| β-strand | 981 | 1 | 14 |
| α-helix | 990-1000 | 11 | |
| α-helix | 1003-1013 | 11 | |
| β-strand | 1016-1018 | 3 | 11 |
| β-strand | 1023-1025 | 3 | 11 |
| α-helix | 1037-1053 | 17 | |
| α-helix | 1055-1062 | 8 | |
| α-helix | 1077-1082 | 6 | |
| β-strand | 1085-1090 | 6 | 12 |
| β-strand | 1094-1102 | 9 | 12 |
| α-helix | 1103-1116 | 14 | |
| α-helix | 1124-1127 | 4 | |
| β-strand | 1141 | 1 | 9 |
| α-helix | 1144-1160 | 17 | |
| β-strand | 1168 | 1 | 14 |
| β-strand | 1174-1178 | 5 | 12 |
| β-strand | 1185-1187 | 3 | 15 |
| β-strand | 1192-1198 | 7 | 15 |
| β-strand | 1213-1217 | 5 | 15 |
| β-strand | 1224-1232 | 9 | 15 |
| α-helix | 1234-1249 | 16 | |
| α-helix | 1256-1273 | 18 | |
| α-helix | 1275-1280 | 6 | |
| α-helix | 1282-1303 | 22 | |
| α-helix | 1314-1317 | 4 | |
| β-strand | 1332 | 1 | 16 |
| β-strand | 1334 | 1 | 17 |
| α-helix | 1335-1336 | 2 | |
| α-helix | 1337-1339 | 3 | |
| β-strand | 1341-1345 | 5 | 18 |
| β-strand | 1350-1354 | 5 | 18 |
| α-helix | 1362-1363 | 2 | |
| β-strand | 1364 | 1 | 17 |
| α-helix | 1365-1367 | 3 | |
| α-helix | 1368-1371 | 4 | |
| α-helix | 1375-1397 | 23 | |
| β-strand | 1403 | 1 | 19 |
| α-helix | 1407-1411 | 5 | |
| α-helix | 1427-1432 | 6 | |
| α-helix | 1436-1446 | 11 | |
| α-helix | 1469-1477 | 9 | |
| α-helix | 1480-1485 | 6 | |
| α-helix | 1490-1492 | 3 | |
| β-strand | 1502-1504 | 3 | 5 |
| α-helix | 1508-1516 | 9 | |
| α-helix | 1520-1527 | 8 | |
| α-helix | 1529-1537 | 9 | |
| α-helix | 1539-1542 | 4 | |
| β-strand | 1552-1554 | 3 | 20 |
| β-strand | 1561-1563 | 3 | 20 |
| α-helix | 1567-1576 | 10 | |
| α-helix | 1581-1599 | 19 | |
| β-strand | 1606-1611 | 6 | 21 |
| α-helix | 1616-1619 | 4 | |
| β-strand | 1626 | 1 | 22 |
| β-strand | 1629-1633 | 5 | 21 |
| β-strand | 1638-1639 | 2 | 23 |
| β-strand | 1643-1644 | 2 | 21 |
| α-helix | 1652-1654 | 3 | |
| β-strand | 1655-1656 | 2 | 23 |
| β-strand | 1659-1667 | 9 | 21 |
| α-helix | 1676-1688 | 13 | |
| β-strand | 1694 | 1 | 22 |
| β-strand | 1700-1706 | 7 | 21 |
| β-strand | 1711-1716 | 6 | 21 |
| α-helix | 1723-1736 | 14 | |
| α-helix | 1738-1750 | 13 | |
| β-strand | 1753-1754 | 2 | 5 |
| α-helix | 1755-1760 | 6 | |
| α-helix | 1765-1769 | 5 | |
| β-strand | 1777-1778 | 2 | 24 |
| β-strand | 1779 | 1 | 25 |
| α-helix | 1782-1786 | 5 | |
| β-strand | 1788-1790 | 3 | 26 |
| α-helix | 1797-1798 | 2 | |
| β-strand | 1800-1802 | 3 | 26 |
| β-strand | 1810 | 1 | 25 |
| β-strand | 1811 | 1 | 27 |
| α-helix | 1812-1814 | 3 | |
| β-strand | 1816 | 1 | 27 |
| β-strand | 1817-1819 | 3 | 28 |
| α-helix | 1824-1827 | 4 | |
| α-helix | 1834-1851 | 18 | |
| β-strand | 1860-1861 | 2 | 24 |
| β-strand | 1863 | 1 | 29 |
| α-helix | 1866-1876 | 11 | |
| β-strand | 1883 | 1 | 24 |
| β-strand | 1886 | 1 | 29 |
| α-helix | 1894-1898 | 5 | |
| α-helix | 1900-1908 | 9 | |
| β-strand | 1915-1917 | 3 | 28 |
| α-helix | 1918-1920 | 3 | |
| α-helix | 1921-1925 | 5 | |
| α-helix | 1929-1945 | 17 | |
| α-helix | 1947-1953 | 7 | |
| α-helix | 1956-1959 | 4 | |
| α-helix | 1974-1993 | 20 | |
| α-helix | 2004-2011 | 8 | |
Chain B: 5 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 40 | 1 | |
| β-strand | 41 | 1 | 16 |
| α-helix | 42 | 1 | |
| α-helix | 47-49 | 3 | |
| α-helix | 64-82 | 19 | |
| α-helix | 199-201 | 3 | |
| β-strand | 220 | 1 | 19 |
Chain C: 49 helices, 40 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 118-124 | 7 | |
| β-strand | 129-134 | 6 | 39 |
| α-helix | 139-153 | 15 | |
| α-helix | 172-177 | 6 | |
| β-strand | 184-185 | 2 | 39 |
| β-strand | 189-190 | 2 | 39 |
| β-strand | 198-204 | 7 | 39 |
| α-helix | 212-221 | 10 | |
| β-strand | 224-226 | 3 | 39 |
| β-strand | 228-230 | 3 | 40 |
| β-strand | 234 | 1 | 40 |
| α-helix | 237-248 | 12 | |
| β-strand | 252-253 | 2 | 39 |
| β-strand | 255-258 | 4 | 40 |
| α-helix | 260-261 | 2 | |
| α-helix | 262-266 | 5 | |
| α-helix | 271-292 | 22 | |
| α-helix | 296-298 | 3 | |
| β-strand | 307-310 | 4 | 40 |
| β-strand | 317-318 | 2 | 40 |
| α-helix | 320-330 | 11 | |
| α-helix | 336-343 | 8 | |
| β-strand | 349-350 | 2 | 41 |
| β-strand | 355-356 | 2 | 41 |
| α-helix | 365-367 | 3 | |
| α-helix | 368-369 | 2 | |
| α-helix | 370-374 | 5 | |
| α-helix | 375-386 | 12 | |
| α-helix | 393-398 | 6 | |
| α-helix | 405-409 | 5 | |
| α-helix | 412-423 | 12 | |
| α-helix | 428-437 | 10 | |
| α-helix | 439-440 | 2 | |
| α-helix | 441-452 | 12 | |
| α-helix | 460-467 | 8 | |
| β-strand | 475-483 | 9 | 42 |
| β-strand | 490-498 | 9 | 42 |
| β-strand | 501-502 | 2 | 43 |
| β-strand | 506-510 | 5 | 42 |
| β-strand | 515 | 1 | 44 |
| β-strand | 518 | 1 | 44 |
| α-helix | 519-521 | 3 | |
| β-strand | 522-526 | 5 | 42 |
| β-strand | 543-544 | 2 | 43 |
| β-strand | 549-553 | 5 | 42 |
| β-strand | 563-566 | 4 | 42 |
| α-helix | 578-580 | 3 | |
| β-strand | 588-594 | 7 | 45 |
| α-helix | 597-599 | 3 | |
| α-helix | 600-613 | 14 | |
| β-strand | 618-621 | 4 | 45 |
| β-strand | 627-631 | 5 | 45 |
| α-helix | 634-643 | 10 | |
| α-helix | 644-648 | 5 | |
| β-strand | 653-655 | 3 | 45 |
| β-strand | 659-660 | 2 | 45 |
| β-strand | 663-666 | 4 | 46 |
| β-strand | 674-678 | 5 | 47 |
| β-strand | 683-691 | 9 | 47 |
| α-helix | 692-693 | 2 | |
| α-helix | 696-701 | 6 | |
| α-helix | 711-720 | 10 | |
| α-helix | 726-730 | 5 | |
| β-strand | 733 | 1 | 47 |
| α-helix | 737-739 | 3 | |
| β-strand | 744-746 | 3 | 47 |
| α-helix | 755-761 | 7 | |
| α-helix | 763-775 | 13 | |
| β-strand | 784 | 1 | 46 |
| β-strand | 787-795 | 9 | 47 |
| α-helix | 800-802 | 3 | |
| α-helix | 805-807 | 3 | |
| α-helix | 809-822 | 14 | |
| α-helix | 824 | 1 | |
| β-strand | 825-839 | 15 | 46 |
| α-helix | 840-852 | 13 | |
| β-strand | 856-862 | 7 | 46 |
| α-helix | 863 | 1 | |
| β-strand | 868-876 | 9 | 46 |
| α-helix | 877-880 | 4 | |
| α-helix | 883-890 | 8 | |
| β-strand | 896 | 1 | 46 |
| β-strand | 899-906 | 8 | 46 |
| α-helix | 907 | 1 | |
| α-helix | 916-919 | 4 | |
| α-helix | 923-925 | 3 | |
| α-helix | 926-928 | 3 | |
| α-helix | 929-941 | 13 | |
| α-helix | 947-948 | 2 | |
Chain D: 4 helices, 10 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 7-8 | 2 | 1 |
| α-helix | 11-19 | 9 | |
| β-strand | 25-29 | 5 | 2 |
| β-strand | 30-31 | 2 | 1 |
| α-helix | 36-51 | 16 | |
| β-strand | 56-58 | 3 | 2 |
| β-strand | 60-62 | 3 | 1 |
| α-helix | 67-69 | 3 | |
| β-strand | 81-83 | 3 | 2 |
| β-strand | 84-85 | 2 | 3 |
| β-strand | 88-89 | 2 | 3 |
| β-strand | 91-93 | 3 | 4 |
| α-helix | 109-125 | 17 | |
| β-strand | 129-131 | 3 | 4 |
Chain G: 7 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 242-254 | 13 | |
| α-helix | 278-280 | 3 | |
| α-helix | 288-291 | 4 | |
| α-helix | 293-295 | 3 | |
| α-helix | 309-315 | 7 | |
| α-helix | 319-327 | 9 | |
| α-helix | 330-353 | 24 | |
Chain L: 5 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 342-345 | 4 | |
| α-helix | 347-349 | 3 | |
| α-helix | 357-365 | 9 | |
| α-helix | 369-373 | 5 | |
| β-strand | 377-379 | 3 | 5 |
| α-helix | 382-383 | 2 | |
Chain N: 8 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 19-23 | 5 | |
| α-helix | 97-113 | 17 | |
| α-helix | 117-134 | 18 | |
| α-helix | 138-142 | 5 | |
| α-helix | 143-149 | 7 | |
| α-helix | 154-158 | 5 | |
| α-helix | 241-258 | 18 | |
| α-helix | 259-261 | 3 | |
4 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| Probable ATP-dependent RNA helicase DDX23 | G | protein | 820 | Homo sapiens | Q9BUQ8 (AlphaFold model) |
| Thioredoxin-like protein 4A | D | protein | 142 | Homo sapiens | P83876 (AlphaFold model) |
| U4/U6 small nuclear ribonucleoprotein Prp31 | L | protein | 499 | Homo sapiens | Q8WWY3 (AlphaFold model) |
| Pre-mRNA-processing-splicing factor 8 | A | protein | 2335 | Homo sapiens | Q6P2Q9 (AlphaFold model) |
| RNA-binding protein 42 | R | protein | 480 | Homo sapiens | Q9BTD8 |
| Ubiquitin carboxyl-terminal hydrolase 39 | U | protein | 565 | Homo sapiens | Q53GS9 |
| U4/U6.U5 tri-snRNP-associated protein 1 | S | protein | 800 | Homo sapiens | O43290 |
| 116 kDa U5 small nuclear ribonucleoprotein component | C | protein | 972 | Homo sapiens | Q15029 |
| U5 snRNA | 5 | RNA | 117 | Homo sapiens | |
| U4 snRNA | 4 | RNA | 144 | Homo sapiens | |
| U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein | X | protein | 155 | Homo sapiens | Q8WVK2 |
| 5'ss oligo | z | RNA | 11 | Homo sapiens | |
4 more molecules are not listed.
Sequence of entity 1 (G), FASTA
>8QPK_1 Probable ATP-dependent RNA helicase DDX23 (chains G)
MAGELADKKDRDASPSKEERKRSRTPDRERDRDRDRKSSPSKDRKRHRSRDRRRGGSRSR
SRSRSKSAERERRHKERERDKERDRNKKDRDRDKDGHRRDKDRKRSSLSPGRGKDFKSRK
DRDSKKDEEDEHGDKKPKAQPLSLEELLAKKKAEEEAEAKPKFLSKAEREAEALKRRQQE
VEERQRMLEEERKKRKQFQDLGRKMLEDPQERERRERRERMERETNGNEDEEGRQKIREE
KDKSKELHAIKERYLGGIKKRRRTRHLNDRKFVFEWDASEDTSIDYNPLYKERHQVQLLG
RGFIAGIDLKQQKREQSRFYGDLMEKRRTLEEKEQEEARLRKLRKKEAKQRWDDRHWSQK
KLDEMTDRDWRIFREDYSITTKGGKIPNPIRSWKDSSLPPHILEVIDKCGYKEPTPIQRQ
AIPIGLQNRDIIGVAETGSGKTAAFLIPLLVWITTLPKIDRIEESDQGPYAIILAPTREL
AQQIEEETIKFGKPLGIRTVAVIGGISREDQGFRLRMGCEIVIATPGRLIDVLENRYLVL
SRCTYVVLDEADRMIDMGFEPDVQKILEHMPVSNQKPDTDEAEDPEKMLANFESGKHKYR
QTVMFTATMPPAVERLARSYLRRPAVVYIGSAGKPHERVEQKVFLMSESEKRKKLLAILE
QGFDPPIIIFVNQKKGCDVLAKSLEKMGYNACTLHGGKGQEQREFALSNLKAGAKDILVA
TDVAGRGIDIQDVSMVVNYDMAKNIEDYIHRIGRTGRAGKSGVAITFLTKEDSAVFYELK
QAILESPVSSCPPELANHPDAQHKPGTILTKKRREETIFA
Sequence of entity 2 (D), FASTA
>8QPK_2 Thioredoxin-like protein 4A (chains D)
MSYMLPHLHNGWQVDQAILSEEDRVVVIRFGHDWDPTCMKMDEVLYSIAEKVKNFAVIYL
VDITEVPDFNKMYELYDPCTVMFFFRNKHIMIDLGTGNNNKINWAMEDKQEMVDIIETVY
RGARKGRGLVVSPKDYSTKYRY
Sequence of entity 3 (L), FASTA
>8QPK_3 U4/U6 small nuclear ribonucleoprotein Prp31 (chains L)
MSLADELLADLEEAAEEEEGGSYGEEEEEPAIEDVQEETQLDLSGDSVKTIAKLWDSKMF
AEIMMKIEEYISKQAKASEVMGPVEAAPEYRVIVDANNLTVEIENELNIIHKFIRDKYSK
RFPELESLVPNALDYIRTVKELGNSLDKCKNNENLQQILTNATIMVVSVTASTTQGQQLS
EEELERLEEACDMALELNASKHRIYEYVESRMSFIAPNLSIIIGASTAAKIMGVAGGLTN
LSKMPACNIMLLGAQRKTLSGFSSTSVLPHTGYIYHSDIVQSLPPDLRRKAARLVAAKCT
LAARVDSFHESTEGKVGYELKDEIERKFDKWQEPPPVKQVKPLPAPLDGQRKKRGGRRYR
KMKERLGLTEIRKQANRMSFGEIEEDAYQEDLGFSLGHLGKSGSGRVRQTQVNEATKARI
SKTLQRTLQKQSVVYGGKSTIRDRSSGTASSVAFTPLQGLEIVNPQAAEKKVAEANQKYF
SSMAEFLKVKGEKSGLMST
Sequence of entity 4 (A), FASTA
>8QPK_4 Pre-mRNA-processing-splicing factor 8 (chains A)
MAGVFPYRGPGNPVPGPLAPLPDYMSEEKLQEKARKWQQLQAKRYAEKRKFGFVDAQKED
MPPEHVRKIIRDHGDMTNRKFRHDKRVYLGALKYMPHAVLKLLENMPMPWEQIRDVPVLY
HITGAISFVNEIPWVIEPVYISQWGSMWIMMRREKRDRRHFKRMRFPPFDDEEPPLDYAD
NILDVEPLEAIQLELDPEEDAPVLDWFYDHQPLRDSRKYVNGSTYQRWQFTLPMMSTLYR
LANQLLTDLVDDNYFYLFDLKAFFTSKALNMAIPGGPKFEPLVRDINLQDEDWNEFNDIN
KIIIRQPIRTEYKIAFPYLYNNLPHHVHLTWYHTPNVVFIKTEDPDLPAFYFDPLINPIS
HRHSVKSQEPLPDDDEEFELPEFVEPFLKDTPLYTDNTANGIALLWAPRPFNLRSGRTRR
ALDIPLVKNWYREHCPAGQPVKVRVSYQKLLKYYVLNALKHRPPKAQKKRYLFRSFKATK
FFQSTKLDWVEVGLQVCRQGYNMLNLLIHRKNLNYLHLDYNFNLKPVKTLTTKERKKSRF
GNAFHLCREVLRLTKLVVDSHVQYRLGNVDAFQLADGLQYIFAHVGQLTGMYRYKYKLMR
QIRMCKDLKHLIYYRFNTGPVGKGPGCGFWAAGWRVWLFFMRGITPLLERWLGNLLARQF
EGRHSKGVAKTVTKQRVESHFDLELRAAVMHDILDMMPEGIKQNKARTILQHLSEAWRCW
KANIPWKVPGLPTPIENMILRYVKAKADWWTNTAHYNRERIRRGATVDKTVCKKNLGRLT
RLYLKAEQERQHNYLKDGPYITAEEAVAVYTTTVHWLESRRFSPIPFPPLSYKHDTKLLI
LALERLKEAYSVKSRLNQSQREELGLIEQAYDNPHEALSRIKRHLLTQRAFKEVGIEFMD
LYSHLVPVYDVEPLEKITDAYLDQYLWYEADKRRLFPPWIKPADTEPPPLLVYKWCQGIN
NLQDVWETSEGECNVMLESRFEKMYEKIDLTLLNRLLRLIVDHNIADYMTAKNNVVINYK
DMNHTNSYGIIRGLQFASFIVQYYGLVMDLLVLGLHRASEMAGPPQMPNDFLSFQDIATE
AAHPIRLFCRYIDRIHIFFRFTADEARDLIQRYLTEHPDPNNENIVGYNNKKCWPRDARM
RLMKHDVNLGRAVFWDIKNRLPRSVTTVQWENSFVSVYSKDNPNLLFNMCGFECRILPKC
RTSYEEFTHKDGVWNLQNEVTKERTAQCFLRVDDESMQRFHNRVRQILMASGSTTFTKIV
NKWNTALIGLMTYFREAVVNTQELLDLLVKCENKIQTRIKIGLNSKMPSRFPPVVFYTPK
ELGGLGMLSMGHVLIPQSDLRWSKQTDVGITHFRSGMSHEEDQLIPNLYRYIQPWESEFI
DSQRVWAEYALKRQEAIAQNRRLTLEDLEDSWDRGIPRINTLFQKDRHTLAYDKGWRVRT
DFKQYQVLKQNPFWWTHQRHDGKLWNLNNYRTDMIQALGGVEGILEHTLFKGTYFPTWEG
LFWEKASGFEESMKWKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGI
FMHGKIPTLKISLIQIFRAHLWQKIHESIVMDLCQVFDQELDALEIETVQKETIHPRKSY
KMNSSCADILLFASYKWNVSRPSLLADSKDVMDSTTTQKYWIDIQLRWGDYDSHDIERYA
RAKFLDYTTDNMSIYPSPTGVLIAIDLAYNLHSAYGNWFPGSKPLIQQAMAKIMKANPAL
YVLRERIRKGLQLYSSEPTEPYLSSQNYGELFSNQIIWFVDDTNVYRVTIHKTFEGNLTT
KPINGAIFIFNPRTGQLFLKIIHTSVWAGQKRLGQLAKWKTAEEVAALIRSLPVEEQPKQ
IIVTRKGMLDPLEVHLLDFPNIVIKGSELQLPFQACLKVEKFGDLILKATEPQMVLFNLY
DDWLKTISSYTAFSRLILILRALHVNNDRAKVILKPDKTTITEPHHIWPTLTDEEWIKVE
VQLKDLILADYGKKNNVNVASLTQSEIRDIILGMEISAPSQQRQQIAEIEKQTKEQSQLT
ATQTRTVNKHGDEIITSTTSNYETQTFSSKTEWRVRAISAANLHLRTNHIYVSSDDIKET
GYTYILPKNVLKKFICISDLRAQIAGYLYGVSPPDNPQVKEIRCIVMVPQWGTHQTVHLP
GQLPQHEYLKEMEPLGWIHTQPNESPQLSPQDVTTHAKIMADNPSWDGEKTIIITCSFTP
GSCTLTAYKLTPSGYEWGRQNTDKGNNPKGYLPSHYERVQMLLSDRFLGFFMVPAQSSWN
YNFMGVRHDPNMKYELQLANPKEFYHEVHRPSHFLNFALLQEGEVYSADREDLYA
Sequence of entity 5 (R), FASTA
>8QPK_5 RNA-binding protein 42 (chains R)
MAGAGPAPGLPGAGGPVVPGPGAGIPGKSGEERLKEMEAEMALFEQEVLGAPVPGIPTAV
PAVPTVPTVPTVEAMQVPAAPVIRPIIATNTYQQVQQTLEARAAAAATVVPPMVGGPPFV
GPVGFGPGDRSHLDSPEAREAMFLRRAAVAPQRAPILRPAFVPHVLQRADSALSSAAAGP
RPMALRPPHQALVGPPLPGPPGPPMMLPPMARAPGPPLGSMAALRPPLEEPAAPRELGLG
LGLGLKEKEEAVVAAAAGLEEASAAVAVGAGGAPAGPAVIGPSLPLALAMPLPEPEPLPL
PLEVVRGLLPPLRIPELLSLRPRPRPPRPEPPPGLMALEVPEPLGEDKKKGKPEKLKRCI
RTAAGSSWEDPSLLEWDADDFRIFCGDLGNEVNDDILARAFSRFPSFLKAKVIRDKRTGK
TKGYGFVSFKDPSDYVRAMREMNGKYVGSRPIKLRKSMWKDRNLDVVRKKQKEKKKLGLR
Sequence of entity 6 (U), FASTA
>8QPK_6 Ubiquitin carboxyl-terminal hydrolase 39 (chains U)
MSGRSKRESRGSTRGKRESESRGSSGRVKRERDREREPEAASSRGSPVRVKREFEPASAR
EAPASVVPFVRVKREREVDEDSEPEREVRAKNGRVDSEDRRSRHCPYLDTINRSVLDFDF
EKLCSISLSHINAYACLVCGKYFQGRGLKSHAYIHSVQFSHHVFLNLHTLKFYCLPDNYE
IIDSSLEDITYVLKPTFTKQQIANLDKQAKLSRAYDGTTYLPGIVGLNNIKANDYANAVL
QALSNVPPLRNYFLEEDNYKNIKRPPGDIMFLLVQRFGELMRKLWNPRNFKAHVSPHEML
QAVVLCSKKTFQITKQGDGVDFLSWFLNALHSALGGTKKKKKTIVTDVFQGSMRIFTKKL
PHPDLPAEEKEQLLHNDEYQETMVESTFMYLTLDLPTAPLYKDEKEQLIIPQVPLFNILA
KFNGITEKEYKTYKENFLKRFQLTKLPPYLIFCIKRFTKNNFFVEKNPTIVNFPITNVDL
REYLSEEVQAVHKNTTYDLIANIVHDGKPSEGSYRIHVLHHGTGKWYELQDLQVTDILPQ
MITLSEAYIQIWKRRDNDETNQQGA
Sequence of entity 7 (S), FASTA
>8QPK_7 U4/U6.U5 tri-snRNP-associated protein 1 (chains S)
MGSSKKHRGEKEAAGTTAAAGTGGATEQPPRHREHKKHKHRSGGSGGSGGERRKRSRERG
GERGSGRRGAEAEARSSTHGRERSQAEPSERRVKREKRDDGYEAAASSKTSSGDASSLSI
EETNKLRAKLGLKPLEVNAIKKEAGTKEEPVTADVINPMALRQREELREKLAAAKEKRLL
NQKLGKIKTLGEDDPWLDDTAAWIERSRQLQKEKDLAEKRAKLLEEMDQEFGVSTLVEEE
FGQRRQDLYSARDLQGLTVEHAIDSFREGETMILTLKDKGVLQEEEDVLVNVNLVDKERA
EKNVELRKKKPDYLPYAEDESVDDLAQQKPRSILSKYDEELEGERPHSFRLEQGGTADGL
RERELEEIRAKLRLQAQSLSTVGPRLASEYLTPEEMVTFKKTKRRVKKIRKKEKEVVVRA
DDLLPLGDQTQDGDFGSRLRGRGRRRVSEVEEEKEPVPQPLPSDDTRVENMDISDEEEGG
APPPGSPQVLEEDEAELELQKQLEKGRRLRQLQQLQQLRDSGEKVVEIVKKLESRQRGWE
EDEDPERKGAIVFNATSEFCRTLGEIPTYGLAGNREEQEELMDFERDEERSANGGSESDG
EENIGWSTVNLDEEKQQQDFSASSTTILDEEPIVNRGLAAALLLCQNKGLLETTVQKVAR
VKAPNKSLPSAVYCIEDKMAIDDKYSRREEYRGFTQDFKEKDGYKPDVKIEYVDETGRKL
TPKEAFRQLSHRFHGKGSGKMKTERRMKKLDEEALLKKMSSSDTPLGTVALLQEKQKAQK
TPYIVLSGSGKSMNANTITK
Sequence of entity 8 (C), FASTA
>8QPK_8 116 kDa U5 small nuclear ribonucleoprotein component (chains C)
MDTDLYDEFGNYIGPELDSDEDDDELGRETKDLDEMDDDDDDDDVGDHDDDHPGMEVVLH
EDKKYYPTAEEVYGPEVETIVQEEDTQPLTEPIIKPVKTKKFTLMEQTLPVTVYEMDFLA
DLMDNSELIRNVTLCGHLHHGKTCFVDCLIEQTHPEIRKRYDQDLCYTDILFTEQERGVG
IKSTPVTVVLPDTKGKSYLFNIMDTPGHVNFSDEVTAGLRISDGVVLFIDAAEGVMLNTE
RLIKHAVQERLAVTVCINKIDRLILELKLPPTDAYYKLRHIVDEVNGLISMYSTDENLIL
SPLLGNVCFSSSQYSICFTLGSFAKIYADTFGDINYQEFAKRLWGDIYFNPKTRKFTKKA
PTSSSQRSFVEFILEPLYKILAQVVGDVDTSLPRTLDELGIHLTKEELKLNIRPLLRLVC
KKFFGEFTGFVDMCVQHIPSPKVGAKPKIEHTYTGGVDSDLGEAMSDCDPDGPLMCHTTK
MYSTDDGVQFHAFGRVLSGTIHAGQPVKVLGENYTLEDEEDSQICTVGRLWISVARYHIE
VNRVPAGNWVLIEGVDQPIVKTATITEPRGNEEAQIFRPLKFNTTSVIKIAVEPVNPSEL
PKMLDGLRKVNKSYPSLTTKVEESGEHVILGTGELYLDCVMHDLRKMYSEIDIKVADPVV
TFCETVVETSSLKCFAETPNKKNKITMIAEPLEKGLAEDIENEVVQITWNRKKLGEFFQT
KYDWDLLAARSIWAFGPDATGPNILVDDTLPSEVDKALLGSVKDSIVQGFQWGTREGPLC
DELIRNVKFKILDAVVAQEPLHRGGGQIIPTARRVVYSAFLMATPRLMEPYYFVEVQAPA
DCVSAVYTVLARRRGHVTQDAPIPGSPLYTIKAFIPAIDSFGFETDLRTHTQGQAFSLSV
FHHWQIVPGDPLDKSIVIRPLEPQPAPHLAREFMIKTRRRKGLSEDVSISKFFDDPMLLE
LAKQDVVLNYPM
Sequence of entity 9 (5), FASTA
>8QPK_9 U5 snRNA (chains 5)
AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGG
AGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGAGGCCUUGCUUUGGCAAGGCUA
Sequence of entity 10 (4), FASTA
>8QPK_10 U4 snRNA (chains 4)
AGCUUUGCGCAGUGGCAGUAUCGUAGCCAAUGAGGUCUAUCCGAGGCGCGAUUAUUGCUA
AUUGAAAACUUUUCCCAAUACCCCGCCGUGACGACUUGCAAUAUAGUCGGCACUGGCAAU
UUUUGACAGUCUCUACGGAGACUG
Sequence of entity 11 (X), FASTA
>8QPK_11 U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein (chains X)
MGRSRSRSPRRERRRSRSTSRERERRRRERSRSRERDRRRSRSRSPHRRRSRSPRRHRST
SPSPSRLKERRDEEKKETKETKSKERQITEEDLEGKTEEEIEMMKLMGFASFDSTKGKKV
DGSVNAYAINVSQKRKYRQYMNRKGGFNRPLDFIA
Sequence of entity 12 (z), FASTA
>8QPK_12 5'ss oligo (chains z)
AAGGUAAGUAU
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| IHP | Inositol hexakisphosphate | C6 H18 O24 P6 | 1 |
Primary citation
Structural insights into the cross-exon to cross-intron spliceosome switch. Zhang, Z., Kumar, V., Dybkov, O. et al. Nature (2024) 630:1012-1019. DOI 10.1038/s41586-024-07458-1 · PubMed
Other PDB entries of the same protein (UniProt Q9BUQ8 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 4NHO 2.0 Å, Structure of the spliceosomal DEAD-box protein Prp28
- 6QW6 2.92 Å, Structure of the human U5.U4/U6 tri-snRNP at 2.9A resolution.
- 8Q91 3.1 Å, Structure of the human 20S U5 snRNP core
- 8QOZ 3.1 Å, Cryo-EM Structure of Pre-B+5'ss+ATPgammaS Complex (core part)
- 8H6E 3.2 Å, Cryo-EM structure of human exon-defined spliceosome in the late pre-B state.
- 8RC0 3.2 Å, Structure of the human 20S U5 snRNP
- 8H6J 3.25 Å, Cryo-EM structure of human exon-defined spliceosome in the mature pre-B state.
- 6QX9 3.28 Å, Structure of a human fully-assembled precatalytic spliceosome (pre-B complex).
- 8Y6O 3.38 Å, Cryo-EM Structure of the human minor pre-B complex (pre-precatalytic spliceosome) U11…
- 8QP8 3.5 Å, Cryo-EM Structure of Pre-B Complex (core part)
- 8QPA 3.7 Å, Cryo-EM Structure of Pre-B+5'ssLNG Complex (core part)
- 8QPB 3.7 Å, Cryo-EM Structure of Pre-B+ATP Complex (core part)
Browse structure collections
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