8QP8: Pre-B Complex
Cryo-EM Structure of Pre-B Complex (core part). Determined by electron microscopy at 3.5 Å resolution. Released 22 May 2024.
- Method
- Electron microscopy
- Resolution
- 3.5 Å
- Organism
- Homo sapiens
- Chains
- 15
- Atoms
- 34,561
- Mol. weight
- 1168.89 kDa
- Ligands
- IHP
- Released
- 22 May 2024
Explore 8QP8 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
8QP8 contains 198 α-helices and 150 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: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 462-471 | 10 | |
Chain A: 101 helices, 61 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 61 | 1 | 20 |
| α-helix | 63-72 | 10 | |
| α-helix | 85-91 | 7 | |
| α-helix | 92-94 | 3 | |
| α-helix | 95-104 | 10 | |
| α-helix | 106-108 | 3 | |
| β-strand | 115-121 | 7 | 20 |
| β-strand | 127-129 | 3 | 20 |
| β-strand | 134-135 | 2 | 21 |
| α-helix | 137-157 | 21 | |
| α-helix | 163-165 | 3 | |
| α-helix | 173-177 | 5 | |
| α-helix | 178-181 | 4 | |
| α-helix | 185-187 | 3 | |
| α-helix | 192-194 | 3 | |
| β-strand | 220 | 1 | 22 |
| β-strand | 227-229 | 3 | 22 |
| α-helix | 232-241 | 10 | |
| α-helix | 243-245 | 3 | |
| α-helix | 253-255 | 3 | |
| α-helix | 260-268 | 9 | |
| α-helix | 284-287 | 4 | |
| α-helix | 310-315 | 6 | |
| α-helix | 327-331 | 5 | |
| α-helix | 333-335 | 3 | |
| α-helix | 357-359 | 3 | |
| α-helix | 371-373 | 3 | |
| α-helix | 398-405 | 8 | |
| α-helix | 409-412 | 4 | |
| β-strand | 415-417 | 3 | 22 |
| β-strand | 419-420 | 2 | 21 |
| α-helix | 428-432 | 5 | |
| α-helix | 434-436 | 3 | |
| α-helix | 441-459 | 19 | |
| α-helix | 463-466 | 4 | |
| α-helix | 472-478 | 7 | |
| β-strand | 482-488 | 7 | 20 |
| α-helix | 489-510 | 22 | |
| β-strand | 516-518 | 3 | 23 |
| β-strand | 524-526 | 3 | 23 |
| α-helix | 529-531 | 3 | |
| α-helix | 532-537 | 6 | |
| α-helix | 541-566 | 26 | |
| α-helix | 571-583 | 13 | |
| α-helix | 585-588 | 4 | |
| α-helix | 598-616 | 19 | |
| α-helix | 631-655 | 25 | |
| α-helix | 681-695 | 15 | |
| α-helix | 702-721 | 20 | |
| α-helix | 733-763 | 31 | |
| α-helix | 769-796 | 28 | |
| α-helix | 803-820 | 18 | |
| α-helix | 822-824 | 3 | |
| β-strand | 825 | 1 | 24 |
| α-helix | 826-827 | 2 | |
| α-helix | 835-848 | 14 | |
| α-helix | 858-872 | 15 | |
| α-helix | 874-887 | 14 | |
| α-helix | 893 | 1 | |
| β-strand | 894-901 | 8 | 25 |
| β-strand | 904-910 | 7 | 25 |
| α-helix | 913-933 | 21 | |
| β-strand | 940 | 1 | 26 |
| α-helix | 948-960 | 13 | |
| β-strand | 973-979 | 7 | 26 |
| β-strand | 982 | 1 | 27 |
| α-helix | 990-1000 | 11 | |
| β-strand | 1001 | 1 | 24 |
| α-helix | 1003-1013 | 11 | |
| β-strand | 1016-1018 | 3 | 25 |
| β-strand | 1023-1025 | 3 | 25 |
| α-helix | 1037-1062 | 26 | |
| α-helix | 1077-1080 | 4 | |
| β-strand | 1085-1090 | 6 | 26 |
| β-strand | 1095-1101 | 7 | 26 |
| α-helix | 1103-1116 | 14 | |
| α-helix | 1123-1125 | 3 | |
| α-helix | 1144-1160 | 17 | |
| β-strand | 1167 | 1 | 27 |
| β-strand | 1174-1178 | 5 | 26 |
| β-strand | 1185-1189 | 5 | 28 |
| β-strand | 1192-1198 | 7 | 28 |
| β-strand | 1213-1218 | 6 | 28 |
| β-strand | 1223-1232 | 10 | 28 |
| 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 | |
| α-helix | 1320-1322 | 3 | |
| β-strand | 1334 | 1 | 29 |
| α-helix | 1335-1336 | 2 | |
| α-helix | 1337-1339 | 3 | |
| β-strand | 1342-1346 | 5 | 30 |
| β-strand | 1349-1353 | 5 | 30 |
| β-strand | 1364 | 1 | 29 |
| α-helix | 1365-1367 | 3 | |
| α-helix | 1368-1370 | 3 | |
| α-helix | 1375-1398 | 24 | |
| α-helix | 1409-1411 | 3 | |
| α-helix | 1421-1423 | 3 | |
| α-helix | 1427-1430 | 4 | |
| α-helix | 1436-1442 | 7 | |
| α-helix | 1443-1445 | 3 | |
| α-helix | 1450-1451 | 2 | |
| α-helix | 1458-1461 | 4 | |
| α-helix | 1468-1478 | 11 | |
| α-helix | 1480-1485 | 6 | |
| α-helix | 1491-1493 | 3 | |
| β-strand | 1502-1503 | 2 | 31 |
| β-strand | 1504 | 1 | 32 |
| α-helix | 1511-1513 | 3 | |
| α-helix | 1520-1537 | 18 | |
| α-helix | 1539-1542 | 4 | |
| β-strand | 1552-1554 | 3 | 33 |
| α-helix | 1555 | 1 | |
| β-strand | 1561-1563 | 3 | 33 |
| α-helix | 1567-1576 | 10 | |
| α-helix | 1581-1599 | 19 | |
| α-helix | 1602-1604 | 3 | |
| β-strand | 1608-1611 | 4 | 34 |
| α-helix | 1616-1620 | 5 | |
| β-strand | 1629-1640 | 12 | 34 |
| α-helix | 1651 | 1 | |
| β-strand | 1652-1667 | 16 | 34 |
| α-helix | 1676-1687 | 12 | |
| β-strand | 1700-1706 | 7 | 34 |
| β-strand | 1711-1714 | 4 | 34 |
| α-helix | 1722-1736 | 15 | |
| α-helix | 1738-1751 | 14 | |
| β-strand | 1753-1754 | 2 | 31 |
| α-helix | 2072-2081 | 10 | |
| α-helix | 2082-2088 | 7 | |
| β-strand | 2090-2092 | 3 | 35 |
| α-helix | 2102 | 1 | |
| β-strand | 2103-2104 | 2 | 36 |
| β-strand | 2107 | 1 | 37 |
| α-helix | 2108-2115 | 8 | |
| β-strand | 2125-2131 | 7 | 38 |
| α-helix | 2132-2133 | 2 | |
| β-strand | 2139-2140 | 2 | 36 |
| β-strand | 2141-2146 | 6 | 38 |
| β-strand | 2150 | 1 | 39 |
| α-helix | 2163-2164 | 2 | |
| α-helix | 2168-2171 | 4 | |
| β-strand | 2173-2181 | 9 | 38 |
| α-helix | 2190-2202 | 13 | |
| β-strand | 2212-2217 | 6 | 38 |
| β-strand | 2219 | 1 | 40 |
| β-strand | 2222 | 1 | 40 |
| β-strand | 2223-2225 | 3 | 35 |
| β-strand | 2229-2230 | 2 | 41 |
| α-helix | 2232-2240 | 9 | |
| α-helix | 2253-2255 | 3 | |
| β-strand | 2256-2257 | 2 | 41 |
| β-strand | 2261 | 1 | 36 |
| β-strand | 2264 | 1 | 37 |
| β-strand | 2270-2274 | 5 | 38 |
| β-strand | 2280 | 1 | 39 |
| β-strand | 2296-2298 | 3 | 38 |
| α-helix | 2300-2303 | 4 | |
| α-helix | 2311-2314 | 4 | |
Chain C: 44 helices, 39 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 116-124 | 9 | |
| α-helix | 126-128 | 3 | |
| β-strand | 129-136 | 8 | 3 |
| α-helix | 142-153 | 12 | |
| α-helix | 172-177 | 6 | |
| β-strand | 184-191 | 8 | 3 |
| β-strand | 197-204 | 8 | 3 |
| α-helix | 212-220 | 9 | |
| β-strand | 224-230 | 7 | 3 |
| β-strand | 234 | 1 | 3 |
| α-helix | 237-248 | 12 | |
| β-strand | 252-258 | 7 | 3 |
| α-helix | 262-265 | 4 | |
| α-helix | 271-292 | 22 | |
| α-helix | 302-304 | 3 | |
| β-strand | 307-311 | 5 | 3 |
| β-strand | 316-318 | 3 | 3 |
| α-helix | 320-330 | 11 | |
| α-helix | 336-343 | 8 | |
| β-strand | 348-350 | 3 | 4 |
| β-strand | 355-357 | 3 | 4 |
| α-helix | 360 | 1 | |
| α-helix | 365-366 | 2 | |
| β-strand | 367 | 1 | 4 |
| α-helix | 368 | 1 | |
| α-helix | 369-374 | 6 | |
| α-helix | 375-386 | 12 | |
| α-helix | 388-398 | 11 | |
| α-helix | 405-408 | 4 | |
| α-helix | 412-424 | 13 | |
| α-helix | 428-436 | 9 | |
| α-helix | 439-440 | 2 | |
| α-helix | 441-452 | 12 | |
| β-strand | 453 | 1 | 5 |
| α-helix | 460-466 | 7 | |
| β-strand | 475-483 | 9 | 6 |
| α-helix | 484 | 1 | |
| β-strand | 490-496 | 7 | 6 |
| β-strand | 500-502 | 3 | 7 |
| β-strand | 506-510 | 5 | 6 |
| β-strand | 522-526 | 5 | 6 |
| β-strand | 530-533 | 4 | 6 |
| β-strand | 538-541 | 4 | 6 |
| β-strand | 543-545 | 3 | 7 |
| β-strand | 549-553 | 5 | 6 |
| β-strand | 564-566 | 3 | 6 |
| α-helix | 576 | 1 | |
| β-strand | 577 | 1 | 5 |
| α-helix | 578-579 | 2 | |
| β-strand | 588-594 | 7 | 8 |
| α-helix | 597-599 | 3 | |
| α-helix | 600-613 | 14 | |
| β-strand | 618-621 | 4 | 8 |
| β-strand | 627-631 | 5 | 8 |
| α-helix | 634-642 | 9 | |
| α-helix | 643-648 | 6 | |
| β-strand | 653-655 | 3 | 8 |
| α-helix | 656-658 | 3 | |
| β-strand | 659-660 | 2 | 8 |
| α-helix | 661-662 | 2 | |
| β-strand | 663-666 | 4 | 9 |
| β-strand | 674-676 | 3 | 10 |
| β-strand | 685-691 | 7 | 10 |
| α-helix | 692-693 | 2 | |
| α-helix | 696-701 | 6 | |
| α-helix | 711-720 | 10 | |
| α-helix | 726-730 | 5 | |
| β-strand | 732-735 | 4 | 10 |
| β-strand | 744-747 | 4 | 10 |
| α-helix | 756-761 | 6 | |
| α-helix | 763-776 | 14 | |
| β-strand | 784 | 1 | 9 |
| β-strand | 787-794 | 8 | 10 |
| α-helix | 800-802 | 3 | |
| α-helix | 808-822 | 15 | |
| β-strand | 825-839 | 15 | 9 |
| α-helix | 842-852 | 11 | |
| β-strand | 856-862 | 7 | 9 |
| β-strand | 868-876 | 9 | 9 |
| α-helix | 883-890 | 8 | |
| β-strand | 896-906 | 11 | 9 |
| α-helix | 926-928 | 3 | |
| α-helix | 929-941 | 13 | |
Chain D: 4 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 7-8 | 2 | 45 |
| α-helix | 11-17 | 7 | |
| β-strand | 25-31 | 7 | 45 |
| α-helix | 36-47 | 12 | |
| β-strand | 56-62 | 7 | 45 |
| α-helix | 69-72 | 4 | |
| β-strand | 80-85 | 6 | 45 |
| β-strand | 88-89 | 2 | 45 |
| β-strand | 91-93 | 3 | 46 |
| α-helix | 109-125 | 17 | |
| β-strand | 129-131 | 3 | 46 |
Chain G: 6 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 243-254 | 12 | |
| α-helix | 278-280 | 3 | |
| α-helix | 288-291 | 4 | |
| β-strand | 298 | 1 | 1 |
| β-strand | 302 | 1 | 1 |
| α-helix | 309-315 | 7 | |
| α-helix | 319-327 | 9 | |
| α-helix | 330-353 | 24 | |
Chain J: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 442-466 | 25 | |
| α-helix | 470-474 | 5 | |
Chain L: 2 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 342-346 | 5 | |
| α-helix | 358-365 | 8 | |
| β-strand | 377 | 1 | 32 |
Chain N: 8 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 20-23 | 4 | |
| α-helix | 75-77 | 3 | |
| β-strand | 78-79 | 2 | 44 |
| β-strand | 83-84 | 2 | 44 |
| α-helix | 96-113 | 18 | |
| α-helix | 117-134 | 18 | |
| α-helix | 138-148 | 11 | |
| α-helix | 154-158 | 5 | |
| α-helix | 240-259 | 20 | |
| α-helix | 270-280 | 11 | |
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 |
|---|
| Splicing factor 3A subunit 1 | 7 | protein | 793 | Homo sapiens | Q15459 (AlphaFold model) |
| Probable ATP-dependent RNA helicase DDX23 | G | protein | 820 | Homo sapiens | Q9BUQ8 (AlphaFold model) |
| U6 snRNA | 6 | RNA | 106 | Homo sapiens | |
| U5 snRNA | 5 | RNA | 117 | Homo sapiens | |
| U4 snRNA | 4 | RNA | 144 | Homo sapiens | |
| U4/U6.U5 tri-snRNP-associated protein 1 | S | protein | 800 | Homo sapiens | O43290 (AlphaFold model) |
| 116 kDa U5 small nuclear ribonucleoprotein component | C | protein | 972 | Homo sapiens | Q15029 (AlphaFold model) |
| Ubiquitin carboxyl-terminal hydrolase 39 | U | protein | 565 | Homo sapiens | Q53GS9 |
| Pre-mRNA-processing-splicing factor 8 | A | protein | 2335 | Homo sapiens | Q6P2Q9 |
| RNA-binding protein 42 | R | protein | 480 | Homo sapiens | Q9BTD8 |
| Pre-mRNA-processing factor 6 | N | protein | 941 | Homo sapiens | O94906 |
| U4/U6 small nuclear ribonucleoprotein Prp31 | L | protein | 499 | Homo sapiens | Q8WWY3 |
3 more molecules are not listed.
Sequence of entity 1 (7), FASTA
>8QP8_1 Splicing factor 3A subunit 1 (chains 7)
MPAGPVQAVPPPPPVPTEPKQPTEEEASSKEDSAPSKPVVGIIYPPPEVRNIVDKTASFV
ARNGPEFEARIRQNEINNPKFNFLNPNDPYHAYYRHKVSEFKEGKAQEPSAAIPKVMQQQ
QQTTQQQLPQKVQAQVIQETIVPKEPPPEFEFIADPPSISAFDLDVVKLTAQFVARNGRQ
FLTQLMQKEQRNYQFDFLRPQHSLFNYFTKLVEQYTKILIPPKGLFSKLKKEAENPREVL
DQVCYRVEWAKFQERERKKEEEEKEKERVAYAQIDWHDFVVVETVDFQPNEQGNFPPPTT
PEELGARILIQERYEKFGESEEVEMEVESDEEDDKQEKAEEPPSQLDQDTQVQDMDEGSD
DEEEGQKVPPPPETPMPPPLPPTPDQVIVRKDYDPKASKPLPPAPAPDEYLVSPITGEKI
PASKMQEHMRIGLLDPRWLEQRDRSIREKQSDDEVYAPGLDIESSLKQLAERRTDIFGVE
ETAIGKKIGEEEIQKPEEKVTWDGHSGSMARTQQAAQANITLQEQIEAIHKAKGLVPEDD
TKEKIGPSKPNEIPQQPPPPSSATNIPSSAPPITSVPRPPTMPPPVRTTVVSAVPVMPRP
PMASVVRLPPGSVIAPMPPIIHAPRINVVPMPPSAPPIMAPRPPPMIVPTAFVPAPPVAP
VPAPAPMPPVHPPPPMEDEPTSKKLKTEDSLMPEEEFLRRNKGPVSIKVQVPNMQDKTEW
KLNGQVLVFTLPLTDQVSVIKVKIHEATGMPAGKQKLQYEGIFIKDSNSLAYYNMANGAV
IHLALKERGGRKK
Sequence of entity 2 (G), FASTA
>8QP8_2 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 3 (6), FASTA
>8QP8_3 U6 snRNA (chains 6)
GUGCUCGCUUCGGCAGCACAUAUACUAAAAUUGGAACGAUACAGAGAAGAUUAGCAUGGC
CCCUGCGCAAGGAUGACACGCAAAUUCGUGAAGCGUUCCAUAUUUU
Sequence of entity 4 (5), FASTA
>8QP8_4 U5 snRNA (chains 5)
AUACUCUGGUUUCUCUUCAGAUCGCAUAAAUCUUUCGCCUUUUACUAAAGAUUUCCGUGG
AGAGGAACAACUCUGAGUCUUAACCCAAUUUUUUGAGGCCUUGCUUUGGCAAGGCUA
Sequence of entity 5 (4), FASTA
>8QP8_5 U4 snRNA (chains 4)
AGCUUUGCGCAGUGGCAGUAUCGUAGCCAAUGAGGUCUAUCCGAGGCGCGAUUAUUGCUA
AUUGAAAACUUUUCCCAAUACCCCGCCGUGACGACUUGCAAUAUAGUCGGCACUGGCAAU
UUUUGACAGUCUCUACGGAGACUG
Sequence of entity 6 (S), FASTA
>8QP8_6 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 7 (C), FASTA
>8QP8_7 116 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 8 (U), FASTA
>8QP8_8 Ubiquitin carboxyl-terminal hydrolase 39 (chains U)
MSGRSKRESRGSTRGKRESESRGSSGRVKRERDREREPEAASSRGSPVRVKREFEPASAR
EAPASVVPFVRVKREREVDEDSEPEREVRAKNGRVDSEDRRSRHCPYLDTINRSVLDFDF
EKLCSISLSHINAYACLVCGKYFQGRGLKSHAYIHSVQFSHHVFLNLHTLKFYCLPDNYE
IIDSSLEDITYVLKPTFTKQQIANLDKQAKLSRAYDGTTYLPGIVGLNNIKANDYANAVL
QALSNVPPLRNYFLEEDNYKNIKRPPGDIMFLLVQRFGELMRKLWNPRNFKAHVSPHEML
QAVVLCSKKTFQITKQGDGVDFLSWFLNALHSALGGTKKKKKTIVTDVFQGSMRIFTKKL
PHPDLPAEEKEQLLHNDEYQETMVESTFMYLTLDLPTAPLYKDEKEQLIIPQVPLFNILA
KFNGITEKEYKTYKENFLKRFQLTKLPPYLIFCIKRFTKNNFFVEKNPTIVNFPITNVDL
REYLSEEVQAVHKNTTYDLIANIVHDGKPSEGSYRIHVLHHGTGKWYELQDLQVTDILPQ
MITLSEAYIQIWKRRDNDETNQQGA
Sequence of entity 9 (A), FASTA
>8QP8_9 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 10 (R), FASTA
>8QP8_10 RNA-binding protein 42 (chains R)
MAGAGPAPGLPGAGGPVVPGPGAGIPGKSGEERLKEMEAEMALFEQEVLGAPVPGIPTAV
PAVPTVPTVPTVEAMQVPAAPVIRPIIATNTYQQVQQTLEARAAAAATVVPPMVGGPPFV
GPVGFGPGDRSHLDSPEAREAMFLRRAAVAPQRAPILRPAFVPHVLQRADSALSSAAAGP
RPMALRPPHQALVGPPLPGPPGPPMMLPPMARAPGPPLGSMAALRPPLEEPAAPRELGLG
LGLGLKEKEEAVVAAAAGLEEASAAVAVGAGGAPAGPAVIGPSLPLALAMPLPEPEPLPL
PLEVVRGLLPPLRIPELLSLRPRPRPPRPEPPPGLMALEVPEPLGEDKKKGKPEKLKRCI
RTAAGSSWEDPSLLEWDADDFRIFCGDLGNEVNDDILARAFSRFPSFLKAKVIRDKRTGK
TKGYGFVSFKDPSDYVRAMREMNGKYVGSRPIKLRKSMWKDRNLDVVRKKQKEKKKLGLR
Sequence of entity 11 (N), FASTA
>8QP8_11 Pre-mRNA-processing factor 6 (chains N)
MNKKKKPFLGMPAPLGYVPGLGRGATGFTTRSDIGPARDANDPVDDRHAPPGKRTVGDQM
KKNQAADDDDEDLNDTNYDEFNGYAGSLFSSGPYEKDDEEADAIYAALDKRMDERRKERR
EQREKEEIEKYRMERPKIQQQFSDLKRKLAEVTEEEWLSIPEVGDARNKRQRNPRYEKLT
PVPDSFFAKHLQTGENHTSVDPRQTQFGGLNTPYPGGLNTPYPGGMTPGLMTPGTGELDM
RKIGQARNTLMDMRLSQVSDSVSGQTVVDPKGYLTDLNSMIPTHGGDINDIKKARLLLKS
VRETNPHHPPAWIASARLEEVTGKLQVARNLIMKGTEMCPKSEDVWLEAARLQPGDTAKA
VVAQAVRHLPQSVRIYIRAAELETDIRAKKRVLRKALEHVPNSVRLWKAAVELEEPEDAR
IMLSRAVECCPTSVELWLALARLETYENARKVLNKARENIPTDRHIWITAAKLEEANGNT
QMVEKIIDRAITSLRANGVEINREQWIQDAEECDRAGSVATCQAVMRAVIGIGIEEEDRK
HTWMEDADSCVAHNALECARAIYAYALQVFPSKKSVWLRAAYFEKNHGTRESLEALLQRA
VAHCPKAEVLWLMGAKSKWLAGDVPAARSILALAFQANPNSEEIWLAAVKLESENDEYER
ARRLLAKARSSAPTARVFMKSVKLEWVQDNIRAAQDLCEEALRHYEDFPKLWMMKGQIEE
QKEMMEKAREAYNQGLKKCPHSTPLWLLLSRLEEKIGQLTRARAILEKSRLKNPKNPGLW
LESVRLEYRAGLKNIANTLMAKALQECPNSGILWSEAIFLEARPQRRTKSVDALKKCEHD
PHVLLAVAKLFWSQRKITKAREWFHRTVKIDSDLGDAWAFFYKFELQHGTEEQQEEVRKR
CESAEPRHGELWCAVSKDIANWQKKIGDILRLVAGRIKNTF
Sequence of entity 12 (L), FASTA
>8QP8_12 U4/U6 small nuclear ribonucleoprotein Prp31 (chains L)
MSLADELLADLEEAAEEEEGGSYGEEEEEPAIEDVQEETQLDLSGDSVKTIAKLWDSKMF
AEIMMKIEEYISKQAKASEVMGPVEAAPEYRVIVDANNLTVEIENELNIIHKFIRDKYSK
RFPELESLVPNALDYIRTVKELGNSLDKCKNNENLQQILTNATIMVVSVTASTTQGQQLS
EEELERLEEACDMALELNASKHRIYEYVESRMSFIAPNLSIIIGASTAAKIMGVAGGLTN
LSKMPACNIMLLGAQRKTLSGFSSTSVLPHTGYIYHSDIVQSLPPDLRRKAARLVAAKCT
LAARVDSFHESTEGKVGYELKDEIERKFDKWQEPPPVKQVKPLPAPLDGQRKKRGGRRYR
KMKERLGLTEIRKQANRMSFGEIEEDAYQEDLGFSLGHLGKSGSGRVRQTQVNEATKARI
SKTLQRTLQKQSVVYGGKSTIRDRSSGTASSVAFTPLQGLEIVNPQAAEKKVAEANQKYF
SSMAEFLKVKGEKSGLMST
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 Q15459 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 7P0V 1.56 Å, Crystal structure of human SF3A1 ubiquitin-like domain in complex with U1 snRNA…
- 8ID2 1.8 Å, Crystal structure of the ubiquitin-like domain in the SF3A1 subunit of human U2 snRNP…
- 7EVO 2.5 Å, The cryo-EM structure of the human 17S U2 snRNP
- 8H6L 2.6 Å, Cryo-EM structure of human exon-defined spliceosome in the early B state.
- 8H6K 2.7 Å, Cryo-EM structure of human exon-defined spliceosome in the mature B state.
- 8HK1 2.7 Å, The cryo-EM structure of human pre-17S U2 snRNP
- 7VPX 3.0 Å, The cryo-EM structure of the human pre-A complex
- 8I0R 3.0 Å, The cryo-EM structure of human Bact-I complex
- 8I0T 3.0 Å, The cryo-EM structure of human Bact-III complex
- 8Q7N 3.1 Å, cryo-EM structure of the human spliceosomal B complex protomer (tri-snRNP core region)
- 8QOZ 3.1 Å, Cryo-EM Structure of Pre-B+5'ss+ATPgammaS Complex (core part)
- 8QPE 3.1 Å, Cryo-EM Structure of Pre-B-like Complex (core part)
Browse structure collections
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