8QP9: Pre-B+AMPPNP Complex
Cryo-EM Structure of Pre-B+AMPPNP Complex (core part). Determined by electron microscopy at 4.1 Å resolution. Released 22 May 2024.
- Method
- Electron microscopy
- Resolution
- 4.1 Å
- Organism
- Homo sapiens
- Chains
- 16
- Atoms
- 25,123
- Mol. weight
- 1413.72 kDa
- Ligands
- IHP
- Released
- 22 May 2024
Explore 8QP9 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
8QP9 contains 185 α-helices and 159 β-strands across 13 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: 90 helices, 59 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 63-72 | 10 | |
| α-helix | 86-91 | 6 | |
| α-helix | 92-94 | 3 | |
| α-helix | 95-104 | 10 | |
| α-helix | 106-108 | 3 | |
| β-strand | 115-118 | 4 | 34 |
| β-strand | 119-120 | 2 | 35 |
| β-strand | 121 | 1 | 36 |
| β-strand | 127-128 | 2 | 35 |
| β-strand | 134 | 1 | 37 |
| α-helix | 137-157 | 21 | |
| α-helix | 174-177 | 4 | |
| α-helix | 178-182 | 5 | |
| α-helix | 186-189 | 4 | |
| α-helix | 201-203 | 3 | |
| β-strand | 220 | 1 | 38 |
| β-strand | 228-229 | 2 | 38 |
| α-helix | 232-242 | 11 | |
| α-helix | 252-255 | 4 | |
| α-helix | 260-268 | 9 | |
| α-helix | 288-290 | 3 | |
| α-helix | 310-315 | 6 | |
| α-helix | 334-336 | 3 | |
| α-helix | 357-359 | 3 | |
| α-helix | 371-373 | 3 | |
| β-strand | 379 | 1 | 4 |
| α-helix | 396-404 | 9 | |
| α-helix | 409-412 | 4 | |
| β-strand | 415-416 | 2 | 38 |
| β-strand | 420 | 1 | 37 |
| α-helix | 428-432 | 5 | |
| α-helix | 434-436 | 3 | |
| α-helix | 441-459 | 19 | |
| α-helix | 462-465 | 4 | |
| α-helix | 472-478 | 7 | |
| β-strand | 482 | 1 | 36 |
| β-strand | 485-488 | 4 | 34 |
| α-helix | 489-507 | 19 | |
| β-strand | 516-518 | 3 | 39 |
| β-strand | 524-526 | 3 | 39 |
| α-helix | 532-537 | 6 | |
| α-helix | 542-565 | 24 | |
| α-helix | 571-582 | 12 | |
| α-helix | 586-589 | 4 | |
| α-helix | 598-616 | 19 | |
| α-helix | 631-655 | 25 | |
| α-helix | 681-696 | 16 | |
| α-helix | 705-720 | 16 | |
| α-helix | 733-763 | 31 | |
| β-strand | 768 | 1 | 16 |
| α-helix | 769-797 | 29 | |
| α-helix | 803-820 | 18 | |
| β-strand | 825 | 1 | 40 |
| α-helix | 826-829 | 4 | |
| α-helix | 835-847 | 13 | |
| α-helix | 858-872 | 15 | |
| α-helix | 874-887 | 14 | |
| α-helix | 893 | 1 | |
| β-strand | 894-899 | 6 | 41 |
| β-strand | 906-910 | 5 | 41 |
| α-helix | 913-933 | 21 | |
| β-strand | 940 | 1 | 42 |
| α-helix | 948-961 | 14 | |
| β-strand | 973-979 | 7 | 43 |
| β-strand | 982 | 1 | 44 |
| α-helix | 990-997 | 8 | |
| β-strand | 1001 | 1 | 40 |
| α-helix | 1003-1013 | 11 | |
| β-strand | 1016-1019 | 4 | 41 |
| β-strand | 1022-1025 | 4 | 41 |
| α-helix | 1037-1053 | 17 | |
| α-helix | 1055-1061 | 7 | |
| α-helix | 1077-1080 | 4 | |
| β-strand | 1085-1088 | 4 | 43 |
| β-strand | 1090 | 1 | 42 |
| β-strand | 1091 | 1 | 45 |
| β-strand | 1094 | 1 | 45 |
| β-strand | 1095-1101 | 7 | 43 |
| α-helix | 1103-1116 | 14 | |
| α-helix | 1124-1126 | 3 | |
| α-helix | 1144-1160 | 17 | |
| β-strand | 1167 | 1 | 44 |
| β-strand | 1174-1178 | 5 | 43 |
| β-strand | 1185-1189 | 5 | 46 |
| β-strand | 1192-1198 | 7 | 46 |
| β-strand | 1226-1232 | 7 | 46 |
| α-helix | 1234-1249 | 16 | |
| α-helix | 1256-1273 | 18 | |
| α-helix | 1277-1280 | 4 | |
| α-helix | 1282-1303 | 22 | |
| α-helix | 1313-1317 | 5 | |
| α-helix | 1337-1339 | 3 | |
| β-strand | 1343-1344 | 2 | 47 |
| β-strand | 1351-1352 | 2 | 47 |
| α-helix | 1368-1371 | 4 | |
| α-helix | 1375-1398 | 24 | |
| α-helix | 1427-1432 | 6 | |
| α-helix | 1436-1442 | 7 | |
| α-helix | 1443-1445 | 3 | |
| α-helix | 1468-1477 | 10 | |
| α-helix | 1480-1486 | 7 | |
| β-strand | 1501-1503 | 3 | 48 |
| α-helix | 1520-1537 | 18 | |
| α-helix | 1539-1542 | 4 | |
| β-strand | 1552-1554 | 3 | 49 |
| α-helix | 1555 | 1 | |
| β-strand | 1561-1563 | 3 | 49 |
| α-helix | 1567-1576 | 10 | |
| α-helix | 1581-1599 | 19 | |
| β-strand | 1609-1611 | 3 | 50 |
| α-helix | 1616-1618 | 3 | |
| β-strand | 1629-1638 | 10 | 50 |
| β-strand | 1642 | 1 | 51 |
| β-strand | 1656-1667 | 12 | 50 |
| α-helix | 1676-1688 | 13 | |
| β-strand | 1700-1706 | 7 | 50 |
| β-strand | 1711-1714 | 4 | 50 |
| β-strand | 1717 | 1 | 51 |
| α-helix | 1718-1719 | 2 | |
| α-helix | 1723-1736 | 14 | |
| α-helix | 1738-1750 | 13 | |
| β-strand | 1753-1755 | 3 | 48 |
| α-helix | 1757-1761 | 5 | |
| β-strand | 1762 | 1 | 52 |
| α-helix | 1768-1772 | 5 | |
| β-strand | 1777 | 1 | 53 |
| β-strand | 1780 | 1 | 52 |
| α-helix | 1783-1785 | 3 | |
| β-strand | 1788-1791 | 4 | 54 |
| β-strand | 1799-1802 | 4 | 54 |
| β-strand | 1805-1811 | 7 | 55 |
| β-strand | 1816-1822 | 7 | 55 |
| α-helix | 1824-1827 | 4 | |
| α-helix | 1834-1851 | 18 | |
| α-helix | 1854-1856 | 3 | |
| β-strand | 1860 | 1 | 53 |
| β-strand | 1863 | 1 | 52 |
| α-helix | 1866-1868 | 3 | |
| α-helix | 1869-1875 | 7 | |
| β-strand | 1883 | 1 | 53 |
| β-strand | 1886 | 1 | 52 |
| α-helix | 1893-1898 | 6 | |
| α-helix | 1902-1908 | 7 | |
| β-strand | 1916-1917 | 2 | 55 |
| α-helix | 1929-1945 | 17 | |
| α-helix | 1948-1954 | 7 | |
| α-helix | 1969-1970 | 2 | |
| α-helix | 1973-1995 | 23 | |
| α-helix | 2004-2012 | 9 | |
Chain B: 7 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 267-272 | 6 | |
| α-helix | 279-293 | 15 | |
| α-helix | 299-310 | 12 | |
| α-helix | 315-323 | 9 | |
| α-helix | 326-335 | 10 | |
| α-helix | 340-352 | 13 | |
| α-helix | 354-363 | 10 | |
Chain C: 40 helices, 50 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 116-124 | 9 | |
| β-strand | 129-131 | 3 | 1 |
| β-strand | 132-133 | 2 | 2 |
| β-strand | 136 | 1 | 3 |
| α-helix | 142-153 | 12 | |
| α-helix | 172-177 | 6 | |
| β-strand | 184-191 | 8 | 1 |
| β-strand | 197-204 | 8 | 1 |
| α-helix | 212-219 | 8 | |
| β-strand | 224-225 | 2 | 2 |
| β-strand | 228-230 | 3 | 3 |
| β-strand | 234 | 1 | 3 |
| α-helix | 237-248 | 12 | |
| β-strand | 252-253 | 2 | 2 |
| β-strand | 256-258 | 3 | 3 |
| α-helix | 260-261 | 2 | |
| α-helix | 262-267 | 6 | |
| α-helix | 271-292 | 22 | |
| β-strand | 308-309 | 2 | 3 |
| β-strand | 318 | 1 | 3 |
| α-helix | 320-331 | 12 | |
| α-helix | 336-340 | 5 | |
| β-strand | 348-350 | 3 | 4 |
| β-strand | 355-357 | 3 | 4 |
| α-helix | 360-361 | 2 | |
| β-strand | 367 | 1 | 4 |
| α-helix | 368-369 | 2 | |
| α-helix | 370-374 | 5 | |
| α-helix | 375-386 | 12 | |
| α-helix | 388-399 | 12 | |
| α-helix | 407-409 | 3 | |
| α-helix | 412-424 | 13 | |
| α-helix | 428-437 | 10 | |
| α-helix | 439-440 | 2 | |
| α-helix | 445-451 | 7 | |
| α-helix | 460-467 | 8 | |
| β-strand | 477-483 | 7 | 5 |
| β-strand | 490-495 | 6 | 5 |
| β-strand | 501-502 | 2 | 6 |
| β-strand | 506-510 | 5 | 7 |
| α-helix | 519-521 | 3 | |
| β-strand | 523-526 | 4 | 7 |
| β-strand | 531-532 | 2 | 5 |
| β-strand | 539-540 | 2 | 5 |
| β-strand | 543-544 | 2 | 6 |
| β-strand | 546 | 1 | 8 |
| β-strand | 548 | 1 | 8 |
| β-strand | 549-551 | 3 | 5 |
| β-strand | 563 | 1 | 5 |
| β-strand | 564-566 | 3 | 7 |
| α-helix | 576-580 | 5 | |
| β-strand | 588-594 | 7 | 9 |
| α-helix | 597-599 | 3 | |
| α-helix | 600-613 | 14 | |
| β-strand | 619-621 | 3 | 9 |
| β-strand | 627-631 | 5 | 9 |
| α-helix | 635-643 | 9 | |
| α-helix | 644-648 | 5 | |
| β-strand | 653-655 | 3 | 9 |
| β-strand | 659-660 | 2 | 9 |
| β-strand | 663 | 1 | 10 |
| β-strand | 664 | 1 | 11 |
| β-strand | 666 | 1 | 12 |
| β-strand | 674-677 | 4 | 13 |
| α-helix | 679-681 | 3 | |
| β-strand | 684-691 | 8 | 13 |
| α-helix | 692-693 | 2 | |
| α-helix | 696-701 | 6 | |
| α-helix | 711-720 | 10 | |
| α-helix | 728-731 | 4 | |
| β-strand | 732-734 | 3 | 13 |
| β-strand | 743 | 1 | 13 |
| β-strand | 745-746 | 2 | 13 |
| α-helix | 756-761 | 6 | |
| α-helix | 763-776 | 14 | |
| β-strand | 784 | 1 | 11 |
| β-strand | 787-795 | 9 | 13 |
| α-helix | 808-822 | 15 | |
| β-strand | 825 | 1 | 12 |
| β-strand | 828-839 | 12 | 10 |
| α-helix | 840-842 | 3 | |
| α-helix | 843-851 | 9 | |
| β-strand | 856-859 | 4 | 10 |
| β-strand | 862 | 1 | 10 |
| β-strand | 868-876 | 9 | 10 |
| α-helix | 877-879 | 3 | |
| α-helix | 883-890 | 8 | |
| β-strand | 896 | 1 | 10 |
| β-strand | 900-906 | 7 | 10 |
| α-helix | 929-940 | 12 | |
Chain D: 6 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 6-7 | 2 | |
| α-helix | 11-20 | 10 | |
| β-strand | 25-29 | 5 | 14 |
| α-helix | 36-47 | 12 | |
| α-helix | 52-54 | 3 | |
| β-strand | 56-60 | 5 | 14 |
| α-helix | 68-72 | 5 | |
| β-strand | 81-84 | 4 | 14 |
| β-strand | 91-92 | 2 | 15 |
| α-helix | 109-125 | 17 | |
| β-strand | 129-130 | 2 | 15 |
| β-strand | 141 | 1 | 16 |
Chain G: 6 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 243-254 | 12 | |
| α-helix | 276-277 | 2 | |
| α-helix | 278-280 | 3 | |
| α-helix | 309-314 | 6 | |
| α-helix | 319-327 | 9 | |
| α-helix | 330-352 | 23 | |
Chain J: 2 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 442-465 | 24 | |
| α-helix | 470-474 | 5 | |
Chain L: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 360-365 | 6 | |
5 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) |
| U5 small nuclear ribonucleoprotein 200 kDa helicase | B | protein | 2136 | Homo sapiens | O75643 (AlphaFold model) |
| 116 kDa U5 small nuclear ribonucleoprotein component | C | protein | 972 | Homo sapiens | Q15029 (AlphaFold model) |
| Thioredoxin-like protein 4A | D | protein | 142 | Homo sapiens | P83876 (AlphaFold model) |
| U4/U6 small nuclear ribonucleoprotein Prp3 | J | protein | 683 | Homo sapiens | O43395 |
| U4/U6 small nuclear ribonucleoprotein Prp31 | L | protein | 499 | Homo sapiens | Q8WWY3 |
| RNA-binding protein 42 | R | protein | 480 | Homo sapiens | Q9BTD8 |
| U4/U6.U5 tri-snRNP-associated protein 1 | S | protein | 800 | Homo sapiens | O43290 |
| Ubiquitin carboxyl-terminal hydrolase 39 | U | protein | 565 | Homo sapiens | Q53GS9 |
| U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein | X | protein | 155 | Homo sapiens | Q8WVK2 |
| Probable ATP-dependent RNA helicase DDX23 | G | protein | 820 | Homo sapiens | Q9BUQ8 |
| U6 snRNA | 6 | RNA | 106 | Homo sapiens | |
4 more molecules are not listed.
Sequence of entity 1 (7), FASTA
>8QP9_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 (B), FASTA
>8QP9_2 U5 small nuclear ribonucleoprotein 200 kDa helicase (chains B)
MADVTARSLQYEYKANSNLVLQADRSLIDRTRRDEPTGEVLSLVGKLEGTRMGDKAQRTK
PQMQEERRAKRRKRDEDRHDINKMKGYTLLSEGIDEMVGIIYKPKTKETRETYEVLLSFI
QAALGDQPRDILCGAADEVLAVLKNEKLRDKERRKEIDLLLGQTDDTRYHVLVNLGKKIT
DYGGDKEIQNMDDNIDETYGVNVQFESDEEEGDEDVYGEVREEASDDDMEGDEAVVRCTL
SANLVASGELMSSKKKDLHPRDIDAFWLQRQLSRFYDDAIVSQKKADEVLEILKTASDDR
ECENQLVLLLGFNTFDFIKVLRQHRMMILYCTLLASAQSEAEKERIMGKMEADPELSKFL
YQLHETEKEDLIREERSRRERVRQSRMDTDLETMDLDQGGEALAPRQVLDLEDLVFTQGS
HFMANKRCQLPDGSFRRQRKGYEEVHVPALKPKPFGSEEQLLPVEKLPKYAQAGFEGFKT
LNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIY
IAPMRSLVQEMVGSFGKRLATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKG
GERTYTQLVRLIILDEIHLLHDDRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYED
VATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQ
VLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEVLRTEAEQCKNLELKDLLPY
GFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGR
WTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDM
LNAEIVLGNVQNAKDAVNWLGYAYLYIRMLRSPTLYGISHDDLKGDPLLDQRRLDLVHTA
ALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLSEIELFRVFSL
SSEFKNITVREEEKLELQKLLERVPIPVKESIEEPSAKINVLLQAFISQLKLEGFALMAD
MVYVTQSAGRLMRAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLRQFRKLPEEVV
KKIEKKNFPFERLYDLNHNEIGELIRMPKMGKTIHKYVHLFPKLELSVHLQPITRSTLKV
ELTITPDFQWDEKVHGSSEAFWILVEDVDSEVILHHEYFLLKAKYAQDEHLITFFVPVFE
PLPPQYFIRVVSDRWLSCETQLPVSFRHLILPEKYPPPTELLDLQPLPVSALRNSAFESL
YQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYIT
PMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRWK
QRKNVQNINLFVVDEVHLIGGENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKDV
AHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSPKKPVI
VFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLKETLLNGVGYL
HEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMDTQYYNGKIHAYVDYP
IYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVESHLDHCMHDHFNAEI
VTKTIENKQDAVDYLTWTFLYRRMTQNPNYYNLQGISHRHLSDHLSELVEQTLSDLEQSK
CISIEDEMDVAPLNLGMIAAYYYINYTTIELFSMSLNAKTKVRGLIEIISNAAEYENIPI
RHHEDNLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRMQLSAELQSDTEEILSKAI
RLIQACVDVLSSNGWLSPALAAMELAQMVTQAMWSKDSYLKQLPHFTSEHIKRCTDKGVE
SVFDIMEMEDEERNALLQLTDSQIADVARFCNRYPNIELSYEVVDKDSIRSGGPVVVLVQ
LEREEEVTGPVIAPLFPQKREEGWWVVIGDAKSNSLISIKRLTLQQKAKVKLDFVAPATG
AHNYTLYFMSDAYMGCDQEYKFSVDVKEAETDSDSD
Sequence of entity 3 (C), FASTA
>8QP9_3 116 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 4 (D), FASTA
>8QP9_4 Thioredoxin-like protein 4A (chains D)
MSYMLPHLHNGWQVDQAILSEEDRVVVIRFGHDWDPTCMKMDEVLYSIAEKVKNFAVIYL
VDITEVPDFNKMYELYDPCTVMFFFRNKHIMIDLGTGNNNKINWAMEDKQEMVDIIETVY
RGARKGRGLVVSPKDYSTKYRY
Sequence of entity 5 (J), FASTA
>8QP9_5 U4/U6 small nuclear ribonucleoprotein Prp3 (chains J)
MALSKRELDELKPWIEKTVKRVLGFSEPTVVTAALNCVGKGMDKKKAADHLKPFLDDSTL
RFVDKLFEAVEEGRSSRHSKSSSDRSRKRELKEVFGDDSEISKESSGVKKRRIPRFEEVE
EEPEVIPGPPSESPGMLTKLQIKQMMEAATRQIEERKKQLSFISPPTPQPKTPSSSQPER
LPIGNTIQPSQAATFMNDAIEKARKAAELQARIQAQLALKPGLIGNANMVGLANLHAMGI
APPKVELKDQTKPTPLILDEQGRTVDATGKEIELTHRMPTLKANIRAVKREQFKQQLKEK
PSEDMESNTFFDPRVSIAPSQRQRRTFKFHDKGKFEKIAQRLRTKAQLEKLQAEISQAAR
KTGIHTSTRLALIAPKKELKEGDIPEIEWWDSYIIPNGFDLTEENPKREDYFGITNLVEH
PAQLNPPVDNDTPVTLGVYLTKKEQKKLRRQTRREAQKELQEKVRLGLMPPPEPKVRISN
LMRVLGTEAVQDPTKVEAHVRAQMAKRQKAHEEANAARKLTAEQRKVKKIKKLKEDISQG
VHISVYRVRNLSNPAKKFKIEANAGQLYLTGVVVLHKDVNVVVVEGGPKAQKKFKRLMLH
RIKWDEQTSNTKGDDDEESDEEAVKKTNKCVLVWEGTAKDRSFGEMKFKQCPTENMAREH
FKKHGAEHYWDLALSESVLESTD
Sequence of entity 6 (L), FASTA
>8QP9_6 U4/U6 small nuclear ribonucleoprotein Prp31 (chains L)
MSLADELLADLEEAAEEEEGGSYGEEEEEPAIEDVQEETQLDLSGDSVKTIAKLWDSKMF
AEIMMKIEEYISKQAKASEVMGPVEAAPEYRVIVDANNLTVEIENELNIIHKFIRDKYSK
RFPELESLVPNALDYIRTVKELGNSLDKCKNNENLQQILTNATIMVVSVTASTTQGQQLS
EEELERLEEACDMALELNASKHRIYEYVESRMSFIAPNLSIIIGASTAAKIMGVAGGLTN
LSKMPACNIMLLGAQRKTLSGFSSTSVLPHTGYIYHSDIVQSLPPDLRRKAARLVAAKCT
LAARVDSFHESTEGKVGYELKDEIERKFDKWQEPPPVKQVKPLPAPLDGQRKKRGGRRYR
KMKERLGLTEIRKQANRMSFGEIEEDAYQEDLGFSLGHLGKSGSGRVRQTQVNEATKARI
SKTLQRTLQKQSVVYGGKSTIRDRSSGTASSVAFTPLQGLEIVNPQAAEKKVAEANQKYF
SSMAEFLKVKGEKSGLMST
Sequence of entity 7 (R), FASTA
>8QP9_7 RNA-binding protein 42 (chains R)
MAGAGPAPGLPGAGGPVVPGPGAGIPGKSGEERLKEMEAEMALFEQEVLGAPVPGIPTAV
PAVPTVPTVPTVEAMQVPAAPVIRPIIATNTYQQVQQTLEARAAAAATVVPPMVGGPPFV
GPVGFGPGDRSHLDSPEAREAMFLRRAAVAPQRAPILRPAFVPHVLQRADSALSSAAAGP
RPMALRPPHQALVGPPLPGPPGPPMMLPPMARAPGPPLGSMAALRPPLEEPAAPRELGLG
LGLGLKEKEEAVVAAAAGLEEASAAVAVGAGGAPAGPAVIGPSLPLALAMPLPEPEPLPL
PLEVVRGLLPPLRIPELLSLRPRPRPPRPEPPPGLMALEVPEPLGEDKKKGKPEKLKRCI
RTAAGSSWEDPSLLEWDADDFRIFCGDLGNEVNDDILARAFSRFPSFLKAKVIRDKRTGK
TKGYGFVSFKDPSDYVRAMREMNGKYVGSRPIKLRKSMWKDRNLDVVRKKQKEKKKLGLR
Sequence of entity 8 (S), FASTA
>8QP9_8 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 9 (U), FASTA
>8QP9_9 Ubiquitin carboxyl-terminal hydrolase 39 (chains U)
MSGRSKRESRGSTRGKRESESRGSSGRVKRERDREREPEAASSRGSPVRVKREFEPASAR
EAPASVVPFVRVKREREVDEDSEPEREVRAKNGRVDSEDRRSRHCPYLDTINRSVLDFDF
EKLCSISLSHINAYACLVCGKYFQGRGLKSHAYIHSVQFSHHVFLNLHTLKFYCLPDNYE
IIDSSLEDITYVLKPTFTKQQIANLDKQAKLSRAYDGTTYLPGIVGLNNIKANDYANAVL
QALSNVPPLRNYFLEEDNYKNIKRPPGDIMFLLVQRFGELMRKLWNPRNFKAHVSPHEML
QAVVLCSKKTFQITKQGDGVDFLSWFLNALHSALGGTKKKKKTIVTDVFQGSMRIFTKKL
PHPDLPAEEKEQLLHNDEYQETMVESTFMYLTLDLPTAPLYKDEKEQLIIPQVPLFNILA
KFNGITEKEYKTYKENFLKRFQLTKLPPYLIFCIKRFTKNNFFVEKNPTIVNFPITNVDL
REYLSEEVQAVHKNTTYDLIANIVHDGKPSEGSYRIHVLHHGTGKWYELQDLQVTDILPQ
MITLSEAYIQIWKRRDNDETNQQGA
Sequence of entity 10 (X), FASTA
>8QP9_10 U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein (chains X)
MGRSRSRSPRRERRRSRSTSRERERRRRERSRSRERDRRRSRSRSPHRRRSRSPRRHRST
SPSPSRLKERRDEEKKETKETKSKERQITEEDLEGKTEEEIEMMKLMGFASFDSTKGKKV
DGSVNAYAINVSQKRKYRQYMNRKGGFNRPLDFIA
Sequence of entity 11 (G), FASTA
>8QP9_11 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 12 (6), FASTA
>8QP9_12 U6 snRNA (chains 6)
GUGCUCGCUUCGGCAGCACAUAUACUAAAAUUGGAACGAUACAGAGAAGAUUAGCAUGGC
CCCUGCGCAAGGAUGACACGCAAAUUCGUGAAGCGUUCCAUAUUUU
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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