9ZE3: Endogenous U2/branchpoint spliceosomal complex
Cryo-EM structure of the endogenous U2/branchpoint spliceosomal complex (Distal DHX15 state). Determined by electron microscopy at 3.93 Å resolution. Released 15 Apr 2026.
- Method
- Electron microscopy
- Resolution
- 3.93 Å
- Organism
- Homo sapiens
- Chains
- 15
- Atoms
- 37,987
- Mol. weight
- 989.4 kDa
- Ligands
- ZN
- Released
- 15 Apr 2026
Explore 9ZE3 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
9ZE3 contains 227 α-helices and 199 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 A: 8 helices, 3 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 642-643 | 2 | 1 |
| β-strand | 648-649 | 2 | 1 |
| β-strand | 654-655 | 2 | 1 |
| α-helix | 659-668 | 10 | |
| α-helix | 670-682 | 13 | |
| α-helix | 686-700 | 15 | |
| α-helix | 704-711 | 8 | |
| α-helix | 746-753 | 8 | |
| α-helix | 778-779 | 2 | |
| α-helix | 782-783 | 2 | |
| α-helix | 799-813 | 15 | |
Chain A1: 8 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 161-188 | 28 | |
| α-helix | 193-198 | 6 | |
| α-helix | 205-219 | 15 | |
| α-helix | 225-232 | 8 | |
| α-helix | 239-243 | 5 | |
| α-helix | 245-272 | 28 | |
| β-strand | 279-284 | 6 | 54 |
| α-helix | 296-298 | 3 | |
| α-helix | 304-317 | 14 | |
Chain A2: 7 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 20-35 | 16 | |
| β-strand | 46-48 | 3 | 55 |
| β-strand | 54-56 | 3 | 55 |
| β-strand | 61-63 | 3 | 55 |
| α-helix | 66-73 | 8 | |
| α-helix | 76-91 | 16 | |
| α-helix | 114-116 | 3 | |
| β-strand | 117-123 | 7 | 56 |
| β-strand | 130-137 | 8 | 56 |
| α-helix | 141-142 | 2 | |
| β-strand | 148-153 | 6 | 54 |
| α-helix | 154-156 | 3 | |
| β-strand | 166-172 | 7 | 54 |
| β-strand | 178-184 | 7 | 54 |
| α-helix | 186-187 | 2 | |
| β-strand | 188-189 | 2 | 56 |
| β-strand | 196-200 | 5 | 56 |
| β-strand | 205-212 | 8 | 56 |
Chain A3: 26 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 4-27 | 24 | |
| α-helix | 33-62 | 30 | |
| α-helix | 67-75 | 9 | |
| α-helix | 80-97 | 18 | |
| α-helix | 106-118 | 13 | |
| α-helix | 120-123 | 4 | |
| α-helix | 124-126 | 3 | |
| α-helix | 127-129 | 3 | |
| α-helix | 143-150 | 8 | |
| α-helix | 155-157 | 3 | |
| α-helix | 160-166 | 7 | |
| α-helix | 170-172 | 3 | |
| α-helix | 175-177 | 3 | |
| α-helix | 180-200 | 21 | |
| α-helix | 206-223 | 18 | |
| α-helix | 317-333 | 17 | |
| α-helix | 335-349 | 15 | |
| α-helix | 383-384 | 2 | |
| β-strand | 385 | 1 | 57 |
| β-strand | 391 | 1 | 57 |
| α-helix | 392-393 | 2 | |
| α-helix | 394-399 | 6 | |
| β-strand | 406-408 | 3 | 58 |
| β-strand | 414-416 | 3 | 58 |
| α-helix | 419-424 | 6 | |
| α-helix | 425-427 | 3 | |
| α-helix | 429-438 | 10 | |
| α-helix | 444-446 | 3 | |
| α-helix | 452-469 | 18 | |
| β-strand | 479-480 | 2 | 59 |
| β-strand | 486-487 | 2 | 59 |
| α-helix | 489-496 | 8 | |
Chain B: 40 helices, 31 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 125-134 | 10 | |
| α-helix | 138-142 | 5 | |
| α-helix | 143-152 | 10 | |
| β-strand | 155-160 | 6 | 2 |
| α-helix | 166-180 | 15 | |
| β-strand | 187-192 | 6 | 2 |
| α-helix | 195-208 | 14 | |
| β-strand | 213 | 1 | 2 |
| β-strand | 217-221 | 5 | 2 |
| β-strand | 224-226 | 3 | 2 |
| β-strand | 233-237 | 5 | 2 |
| α-helix | 238-247 | 10 | |
| β-strand | 254-259 | 6 | 2 |
| α-helix | 262-264 | 3 | |
| α-helix | 267-280 | 14 | |
| β-strand | 287-292 | 6 | 2 |
| α-helix | 298-303 | 6 | |
| β-strand | 309-312 | 4 | 2 |
| β-strand | 319-323 | 5 | 3 |
| α-helix | 331-345 | 15 | |
| β-strand | 351-355 | 5 | 3 |
| α-helix | 359-375 | 17 | |
| α-helix | 381-382 | 2 | |
| β-strand | 383-388 | 6 | 3 |
| α-helix | 394-397 | 4 | |
| α-helix | 398-401 | 4 | |
| α-helix | 403-408 | 6 | |
| α-helix | 412-414 | 3 | |
| β-strand | 415-420 | 6 | 3 |
| α-helix | 423-426 | 4 | |
| β-strand | 433-438 | 6 | 3 |
| β-strand | 441-448 | 8 | 4 |
| β-strand | 453-460 | 8 | 4 |
| α-helix | 461-462 | 2 | |
| α-helix | 463-471 | 9 | |
| α-helix | 472-474 | 3 | |
| β-strand | 479-483 | 5 | 3 |
| α-helix | 487-488 | 2 | |
| α-helix | 489-493 | 5 | |
| α-helix | 498-500 | 3 | |
| α-helix | 501-503 | 3 | |
| α-helix | 508-516 | 9 | |
| α-helix | 530-532 | 3 | |
| α-helix | 533-545 | 13 | |
| β-strand | 549 | 1 | 5 |
| α-helix | 554 | 1 | |
| β-strand | 555 | 1 | 5 |
| α-helix | 556 | 1 | |
| α-helix | 557-564 | 8 | |
| α-helix | 569-577 | 9 | |
| α-helix | 584-594 | 11 | |
| β-strand | 600 | 1 | 6 |
| α-helix | 607-617 | 11 | |
| β-strand | 619 | 1 | 7 |
| β-strand | 622 | 1 | 7 |
| α-helix | 624-636 | 13 | |
| α-helix | 641-646 | 6 | |
| β-strand | 649 | 1 | 6 |
| α-helix | 651-670 | 20 | |
| α-helix | 684-696 | 13 | |
| β-strand | 701-704 | 4 | 7 |
| β-strand | 710-712 | 3 | 7 |
| β-strand | 718-719 | 2 | 7 |
| β-strand | 720-721 | 2 | 4 |
| β-strand | 733-735 | 3 | 7 |
| β-strand | 738-741 | 4 | 4 |
| β-strand | 745-748 | 4 | 4 |
| β-strand | 751-752 | 2 | 7 |
| α-helix | 755-761 | 7 | |
| α-helix | 771-772 | 2 | |
| α-helix | 775-794 | 20 | |
Chain B1: 66 helices, 1 β-strand
| Element | Residues | Length | Sheet |
|---|
| α-helix | 380-395 | 16 | |
| α-helix | 401-407 | 7 | |
| β-strand | 412-414 | 3 | 12 |
| α-helix | 416-418 | 3 | |
| α-helix | 466-468 | 3 | |
| α-helix | 469-471 | 3 | |
| α-helix | 476-478 | 3 | |
| α-helix | 489-506 | 18 | |
| α-helix | 509-519 | 11 | |
| α-helix | 523-526 | 4 | |
| α-helix | 528-539 | 12 | |
| α-helix | 546-562 | 17 | |
| α-helix | 568-570 | 3 | |
| α-helix | 571-578 | 8 | |
| α-helix | 579-581 | 3 | |
| α-helix | 587-604 | 18 | |
| α-helix | 607-613 | 7 | |
| α-helix | 615-618 | 4 | |
| α-helix | 622-639 | 18 | |
| α-helix | 642-644 | 3 | |
| α-helix | 645-653 | 9 | |
| α-helix | 658-674 | 17 | |
| α-helix | 683-691 | 9 | |
| α-helix | 692-694 | 3 | |
| α-helix | 699-715 | 17 | |
| α-helix | 725-735 | 11 | |
| α-helix | 741-753 | 13 | |
| α-helix | 759-775 | 17 | |
| α-helix | 776-778 | 3 | |
| α-helix | 782-797 | 16 | |
| α-helix | 803-805 | 3 | |
| α-helix | 806-810 | 5 | |
| α-helix | 811-817 | 7 | |
| α-helix | 821-824 | 4 | |
| α-helix | 827-844 | 18 | |
| α-helix | 846-853 | 8 | |
| α-helix | 854-858 | 5 | |
| α-helix | 862-879 | 18 | |
| α-helix | 886-902 | 17 | |
| α-helix | 909-921 | 13 | |
| α-helix | 922-928 | 7 | |
| α-helix | 929-938 | 10 | |
| α-helix | 945-964 | 20 | |
| α-helix | 968-980 | 13 | |
| α-helix | 987-1004 | 18 | |
| α-helix | 1017-1023 | 7 | |
| α-helix | 1029-1045 | 17 | |
| α-helix | 1047-1049 | 3 | |
| α-helix | 1052-1065 | 14 | |
| α-helix | 1071-1088 | 18 | |
| α-helix | 1091-1099 | 9 | |
| α-helix | 1109-1122 | 14 | |
| α-helix | 1125-1127 | 3 | |
| α-helix | 1129-1134 | 6 | |
| α-helix | 1135-1137 | 3 | |
| α-helix | 1141-1158 | 18 | |
| α-helix | 1159-1163 | 5 | |
| α-helix | 1166-1176 | 11 | |
| α-helix | 1182-1198 | 17 | |
| α-helix | 1205-1215 | 11 | |
| α-helix | 1216-1220 | 5 | |
| α-helix | 1224-1241 | 18 | |
| α-helix | 1243-1250 | 8 | |
| α-helix | 1259-1275 | 17 | |
| α-helix | 1285-1286 | 2 | |
| α-helix | 1288-1290 | 3 | |
| α-helix | 1298-1301 | 4 | |
Chain B2: 16 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 452-458 | 7 | |
| α-helix | 462-466 | 5 | |
| α-helix | 472-474 | 3 | |
| α-helix | 479-481 | 3 | |
| α-helix | 485-492 | 8 | |
| α-helix | 499-501 | 3 | |
| α-helix | 526-529 | 4 | |
| α-helix | 533-546 | 14 | |
| α-helix | 552-560 | 9 | |
| α-helix | 569-576 | 8 | |
| α-helix | 581-583 | 3 | |
| α-helix | 595-602 | 8 | |
| α-helix | 611-616 | 6 | |
| α-helix | 625-627 | 3 | |
| α-helix | 633-639 | 7 | |
| β-strand | 651 | 1 | 13 |
| β-strand | 655 | 1 | 13 |
| α-helix | 656-658 | 3 | |
| β-strand | 675 | 1 | 14 |
| β-strand | 681 | 1 | 14 |
Chain B3: 19 helices, 108 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 3-9 | 7 | 15 |
| β-strand | 16-20 | 5 | 16 |
| β-strand | 29-33 | 5 | 16 |
| β-strand | 37-43 | 7 | 16 |
| β-strand | 50-57 | 8 | 16 |
| β-strand | 64-69 | 6 | 17 |
| β-strand | 76-81 | 6 | 17 |
| β-strand | 86-93 | 8 | 17 |
| β-strand | 98-106 | 9 | 17 |
| β-strand | 120-123 | 4 | 18 |
| β-strand | 129-133 | 5 | 18 |
| β-strand | 136 | 1 | 19 |
| β-strand | 139-143 | 5 | 18 |
| β-strand | 144-146 | 3 | 20 |
| β-strand | 152-154 | 3 | 20 |
| β-strand | 158-159 | 2 | 18 |
| β-strand | 166-173 | 8 | 19 |
| β-strand | 181-187 | 7 | 19 |
| α-helix | 191-193 | 3 | |
| β-strand | 207-214 | 8 | 19 |
| β-strand | 219-227 | 9 | 19 |
| β-strand | 232-238 | 7 | 21 |
| α-helix | 239 | 1 | |
| β-strand | 247-252 | 6 | 21 |
| β-strand | 255-258 | 4 | 21 |
| α-helix | 264-266 | 3 | |
| β-strand | 267-270 | 4 | 21 |
| α-helix | 271-272 | 2 | |
| β-strand | 273-274 | 2 | 22 |
| β-strand | 289-294 | 6 | 23 |
| β-strand | 299-304 | 6 | 23 |
| β-strand | 309-317 | 9 | 23 |
| β-strand | 322-332 | 11 | 23 |
| β-strand | 336 | 1 | 24 |
| β-strand | 340-342 | 3 | 25 |
| β-strand | 346-349 | 4 | 25 |
| β-strand | 351 | 1 | 24 |
| β-strand | 357-361 | 5 | 25 |
| β-strand | 373-374 | 2 | 23 |
| β-strand | 386-387 | 2 | 22 |
| β-strand | 395-400 | 6 | 25 |
| β-strand | 407-413 | 7 | 26 |
| β-strand | 422-427 | 6 | 26 |
| α-helix | 430-432 | 3 | |
| β-strand | 434-439 | 6 | 26 |
| β-strand | 442 | 1 | 27 |
| β-strand | 445-450 | 6 | 28 |
| β-strand | 458-462 | 5 | 29 |
| β-strand | 473-477 | 5 | 29 |
| β-strand | 482-486 | 5 | 29 |
| β-strand | 492-494 | 3 | 29 |
| β-strand | 507-510 | 4 | 30 |
| β-strand | 516-520 | 5 | 30 |
| β-strand | 523-527 | 5 | 30 |
| β-strand | 533-536 | 4 | 30 |
| α-helix | 537-538 | 2 | |
| β-strand | 544-548 | 5 | 31 |
| β-strand | 553-558 | 6 | 31 |
| α-helix | 559-561 | 3 | |
| β-strand | 562 | 1 | 32 |
| β-strand | 563-568 | 6 | 31 |
| β-strand | 574-576 | 3 | 31 |
| β-strand | 582 | 1 | 32 |
| β-strand | 587-592 | 6 | 33 |
| α-helix | 593-596 | 4 | |
| β-strand | 605-609 | 5 | 33 |
| β-strand | 613-618 | 6 | 33 |
| α-helix | 621-623 | 3 | |
| β-strand | 626-632 | 7 | 33 |
| β-strand | 637-644 | 8 | 34 |
| β-strand | 663-669 | 7 | 34 |
| β-strand | 673-678 | 6 | 34 |
| β-strand | 686-690 | 5 | 34 |
| β-strand | 700-706 | 7 | 35 |
| β-strand | 709-715 | 7 | 35 |
| β-strand | 720-723 | 4 | 35 |
| β-strand | 730-733 | 4 | 35 |
| β-strand | 734 | 1 | 27 |
| β-strand | 741-745 | 5 | 28 |
| β-strand | 753-758 | 6 | 28 |
| β-strand | 761-766 | 6 | 28 |
| β-strand | 775-780 | 6 | 26 |
| β-strand | 784-790 | 7 | 36 |
| β-strand | 797-802 | 6 | 36 |
| β-strand | 804 | 1 | 37 |
| α-helix | 809-826 | 18 | |
| α-helix | 833-844 | 12 | |
| α-helix | 849-852 | 4 | |
| β-strand | 862 | 1 | 37 |
| β-strand | 865-869 | 5 | 36 |
| β-strand | 876-881 | 6 | 36 |
| β-strand | 886-894 | 9 | 38 |
| β-strand | 904-911 | 8 | 38 |
| β-strand | 914 | 1 | 39 |
| β-strand | 919 | 1 | 39 |
| β-strand | 923-931 | 9 | 38 |
| β-strand | 936-945 | 10 | 38 |
| β-strand | 952 | 1 | 40 |
| β-strand | 955 | 1 | 41 |
| β-strand | 958 | 1 | 41 |
| β-strand | 959-961 | 3 | 40 |
| β-strand | 967-971 | 5 | 40 |
| β-strand | 978-983 | 6 | 40 |
| β-strand | 990-995 | 6 | 42 |
| β-strand | 999-1004 | 6 | 42 |
| β-strand | 1007 | 1 | 43 |
| β-strand | 1009-1014 | 6 | 42 |
| β-strand | 1021-1025 | 5 | 42 |
| β-strand | 1026 | 1 | 44 |
| β-strand | 1030 | 1 | 43 |
| β-strand | 1033-1038 | 6 | 45 |
| β-strand | 1044-1048 | 5 | 45 |
| β-strand | 1052-1057 | 6 | 45 |
| α-helix | 1073-1076 | 4 | |
| β-strand | 1088 | 1 | 44 |
| β-strand | 1090-1096 | 7 | 45 |
| β-strand | 1101-1107 | 7 | 15 |
| β-strand | 1116-1121 | 6 | 15 |
| β-strand | 1126-1131 | 6 | 15 |
| α-helix | 1135-1151 | 17 | |
| α-helix | 1160-1164 | 5 | |
| β-strand | 1171 | 1 | 45 |
| β-strand | 1173-1175 | 3 | 15 |
| α-helix | 1176-1180 | 5 | |
| α-helix | 1181-1183 | 3 | |
| α-helix | 1187-1196 | 10 | |
| α-helix | 1201-1215 | 15 | |
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 |
|---|
| RNA-binding protein 5 | A | protein | 824 | Homo sapiens | P52756 (AlphaFold model) |
| ATP-dependent RNA helicase DHX15 | B | protein | 795 | Homo sapiens | O43143 (AlphaFold model) |
| U2 snRNP-associated SURP motif-containing protein | C | protein | 1029 | Homo sapiens | O15042 (AlphaFold model) |
| U2 snRNA | 2 | RNA | 37 | Homo sapiens | |
| PHD finger-like domain-containing protein 5A | H | protein | 110 | Homo sapiens | Q7RTV0 (AlphaFold model) |
| Pre-mRNA | R | RNA | 44 | Homo sapiens | |
| Splicing factor 3B subunit 1 | B1 | protein | 1304 | Homo sapiens | O75533 |
| Splicing factor 3B subunit 2 | B2 | protein | 895 | Homo sapiens | Q13435 |
| Splicing factor 3B subunit 3 | B3 | protein | 1217 | Homo sapiens | Q15393 |
| Splicing factor 3B subunit 4 | B4 | protein | 424 | Homo sapiens | Q15427 |
| Splicing factor 3B subunit 5 | B5 | protein | 86 | Homo sapiens | Q9BWJ5 |
| Splicing factor 3B subunit 6 | B6 | protein | 125 | Homo sapiens | Q9Y3B4 |
3 more molecules are not listed.
Sequence of entity 1 (A), FASTA
>9ZE3_1 RNA-binding protein 5 (chains A)
MGSDKRVSRTERSGRYGSIIDRDDRDERESRSRRRDSDYKRSSDDRRGDRYDDYRDYDSP
ERERERRNSDRSEDGYHSDGDYGEHDYRHDISDERESKTIMLRGLPITITESDIREMMES
FEGPQPADVRLMKRKTGVSRGFAFVEFYHLQDATSWMEANQKKLVIQGKHIAMHYSNPRP
KFEDWLCNKCCLNNFRKRLKCFRCGADKFDSEQEVPPGTTESVQSVDYYCDTIILRNIAP
HTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPP
LKIDGKTIGVDFAKSARKDLVLSDGNRVSAFSVASTAIAAAQWSSTQSQSGEGGSVDYSY
LQPGQDGYAQYAQYSQDYQQFYQQQAGGLESDASSASGTAVTTTSAAVVSQSPQLYNQTS
NPPGSPTEEAQPSTSTSTQAPAASPTGVVPGTKYAVPDTSTYQYDESSGYYYDPTTGLYY
DPNSQYYYNSLTQQYLYWDGEKETYVPAAESSSHQQSGLPPAKEGKEKKEKPKSKTAQQI
AKDMERWAKSLNKQKENFKNSFQPVNSLREEERRESAAADAGFALFEKKGALAERQQLIP
ELVRNGDEENPLKRGLVAAYSGDSDNEEELVERLESEEEKLADWKKMACLLCRRQFPNKD
ALVRHQQLSDLHKQNMDIYRRSRLSEQELEALELREREMKYRDRAAERREKYGIPEPPEP
KRKKQFDAGTVNYEQPTKDGIDHSNIGNKMLQAMGWREGSGLGRKCQGITAPIEAQVRLK
GAGLGAKGSAYGLSGADSYKDAVRKAMFARFTEMEMDYKDDDDK
Sequence of entity 2 (B), FASTA
>9ZE3_2 ATP-dependent RNA helicase DHX15 (chains B)
MSKRHRLDLGEDYPSGKKRAGTDGKDRDRDRDREDRSKDRDRERDRGDREREREKEKEKE
LRASTNAMLISAGLPPLKASHSAHSTHSAHSTHSTHSAHSTHAGHAGHTSLPQCINPFTN
LPHTPRYYDILKKRLQLPVWEYKDRFTDILVRHQSFVLVGETGSGKTTQIPQWCVEYMRS
LPGPKRGVACTQPRRVAAMSVAQRVADEMDVMLGQEVGYSIRFEDCSSAKTILKYMTDGM
LLREAMNDPLLERYGVIILDEAHERTLATDILMGVLKEVVRQRSDLKVIVMSATLDAGKF
QIYFDNCPLLTIPGRTHPVEIFYTPEPERDYLEAAIRTVIQIHMCEEEEGDLLLFLTGQE
EIDEACKRIKREVDDLGPEVGDIKIIPLYSTLPPQQQQRIFEPPPPKKQNGAIGRKVVVS
TNIAETSLTIDGVVFVIDPGFAKQKVYNPRIRVESLLVTAISKASAQQRAGRAGRTRPGK
CFRLYTEKAYKTEMQDNTYPEILRSNLGSVVLQLKKLGIDDLVHFDFMDPPAPETLMRAL
ELLNYLAALNDDGDLTELGSMMAEFPLDPQLAKMVIASCDYNCSNEVLSITAMLSVPQCF
VRPTEAKKAADEAKMRFAHIDGDHLTLLNVYHAFKQNHESVQWCYDNFINYRSLMSADNV
RQQLSRIMDRFNLPRRSTDFTSRDYYINIRKALVTGYFMQVAHLERTGHYLTVKDNQVVQ
LHPSTVLDHKPEWVLYNEFVLTTKNYIRTCTDIKPEWLVKIAPQYYDMSNFPQCEAKRQL
DRIIAKLQSKEYSQY
Sequence of entity 3 (C), FASTA
>9ZE3_3 U2 snRNP-associated SURP motif-containing protein (chains C)
MADKTPGGSQKASSKTRSSDVHSSGSSDAHMDASGPSDSDMPSRTRPKSPRKHNYRNESA
RESLCDSPHQNLSRPLLENKLKAFSIGKMSTAKRTLSKKEQEELKKKEDEKAAAEIYEEF
LAAFEGSDGNKVKTFVRGGVVNAAKEEHETDEKRGKIYKPSSRFADQKNPPNQSSNERPP
SLLVIETKKPPLKKGEKEKKKSNLELFKEELKQIQEERDERHKTKGRLSRFEPPQSDSDG
QRRSMDAPSRRNRSSGVLDDYAPGSHDVGDPSTTNLYLGNINPQMNEEMLCQEFGRFGPL
ASVKIMWPRTDEERARERNCGFVAFMNRRDAERALKNLNGKMIMSFEMKLGWGKAVPIPP
HPIYIPPSMMEHTLPPPPSGLPFNAQPRERLKNPNAPMLPPPKNKEDFEKTLSQAIVKVV
IPTERNLLALIHRMIEFVVREGPMFEAMIMNREINNPMFRFLFENQTPAHVYYRWKLYSI
LQGDSPTKWRTEDFRMFKNGSFWRPPPLNPYLHGMSEEQETEAFVEEPSKKGALKEEQRD
KLEEILRGLTPRKNDIGDAMVFCLNNAEAAEEIVDCITESLSILKTPLPKKIARLYLVSD
VLYNSSAKVANASYYRKFFETKLCQIFSDLNATYRTIQGHLQSENFKQRVMTCFRAWEDW
AIYPEPFLIKLQNIFLGLVNIIEEKETEDVPDDLDGAPIEEELDGAPLEDVDGIPIDATP
IDDLDGVPIKSLDDDLDGVPLDATEDSKKNEPIFKVAPSKWEAVDESELEAQAVTTSKWE
LFDQHEESEEEENQNQEEESEDEEDTQSSKSEEHHLYSNPIKEEMTESKFSKYSEMSEEK
RAKLREIELKVMKFQDELESGKRPKKPGQSFQEQVEHYRDKLLQREKEKELERERERDKK
DKEKLESRSKDKKEKDECTPTRKERKRRHSTSPSPSRSSSGRRVKSPSPKSERSERSERS
HKESSRSRSSHKDSPRDVSKKAKRSPSGSRTPKRSRRSRSRSPKKSGKKSRSQSRSPHRS
HKKSKKNKH
Sequence of entity 4 (2), FASTA
>9ZE3_4 U2 snRNA (chains 2)
AAGUGUAGUAUCUGUUCUCAUCAGUUUAAUAUCUGAU
Sequence of entity 5 (H), FASTA
>9ZE3_5 PHD finger-like domain-containing protein 5A (chains H)
MAKHHPDLIFCRKQAGVAIGRLCEKCDGKCVICDSYVRPCTLVRICDECNYGSYQGRCVI
CGGPGVSDAYYCKECTIQEKDRDGCPKIVNLGSSKTDLFYERKKYGFKKR
Sequence of entity 6 (R), FASTA
>9ZE3_6 Pre-mRNA (chains R)
UUUUUUUUUUUUUUUCUCAUUUUUUUUUUUUUUUUUUUUUUUUU
Sequence of entity 7 (B1), FASTA
>9ZE3_7 Splicing factor 3B subunit 1 (chains B1)
MAKIAKTHEDIEAQIREIQGKKAALDEAQGVGLDSTGYYDQEIYGGSDSRFAGYVTSIAA
TELEDDDDDYSSSTSLLGQKKPGYHAPVALLNDIPQSTEQYDPFAEHRPPKIADREDEYK
KHRRTMIISPERLDPFADGGKTPDPKMNARTYMDVMREQHLTKEEREIRQQLAEKAKAGE
LKVVNGAAASQPPSKRKRRWDQTADQTPGATPKKLSSWDQAETPGHTPSLRWDETPGRAK
GSETPGATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRWDETPKTE
RDTPGHGSGWAETPRTDRGGDSIGETPTPGASKRKSRWDETPASQMGGSTPVLTPGKTPI
GTPAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAMFPEGYKVLPPPAG
YVPIRTPARKLTATPTPLGGMTGFHMQTEDRTMKSVNDQPSGNLPFLKPDDIQYFDKLLV
DVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAREFGAGPLFNQILPLLM
SPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNL
AKAAGLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQA
RHTGIKIVQQIAILMGCAILPHLRSLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYG
IESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANYYTREVMLILIREFQSP
DEEMKKIVLKVVKQCCGTDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVEL
ANKVGAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAF
QEQTTEDSVMLNGFGTVVNALGKRVKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAV
VMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVIGMHKMTPPIKDLLPRL
TPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNT
FGYIAKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPE
LNVQNGVLKSLSFLFEYIGEMGKDYIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVY
GFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPCRMLQYCLQGLFHPARK
VRDVYWKIYNSIYIGSQDALIAHYPRIYNDDKNTYIRYELDYIL
Sequence of entity 8 (B2), FASTA
>9ZE3_8 Splicing factor 3B subunit 2 (chains B2)
MATEHPEPPKAELQLPPPPPPGHYGAWAAQELQAKLAEIGAPIQGNREELVERLQSYTRQ
TGIVLNRPVLRGEDGDKAAPPPMSAQLPGIPMPPPPLGLPPLQPPPPPPPPPPGLGLGFP
MAHPPNLGPPPPLRVGEPVALSEEERLKLAQQQAALLMQQEERAKQQGDHSLKEHELLEQ
QKRAAVLLEQERQQEIAKMGTPVPRPPQDMGQIGVRTPLGPRVAAPVGPVGPTPTVLPMG
APVPRPRGPPPPPGDENREMDDPSVGPKIPQALEKILQLKESRQEEMNSQQEEEEMETDA
RSSLGQSASETEEDTVSVSKKEKNRKRRNRKKKKKPQRVRGVSSESSGDREKDSTRSRGS
DSPAADVEIEYVTEEPEIYEPNFIFFKRIFEAFKLTDDVKKEKEKEPEKLDKLENSAAPK
KKGFEEEHKDSDDDSSDDEQEKKPEAPKLSKKKLRRMNRFTVAELKQLVARPDVVEMHDV
TAQDPKLLVHLKATRNSVPVPRHWCFKRKYLQGKRGIEKPPFELPDFIKRTGIQEMREAL
QEKEEQKTMKSKMREKVRPKMGKIDIDYQKLHDAFFKWQTKPKLTIHGDLYYEGKEFETR
LKEKKPGDLSDELRISLGMPVGPNAHKVPPPWLIAMQRYGPPPSYPNLKIPGLNSPIPES
CSFGYHAGGWGKPPVDETGKPLYGDVFGTNAAEFQTKTEEEEIDRTPWGELEPSDEESSE
EEEEEESDEDKPDETGFITPADSGLITPGGFSSVPAGMETPELIELRKKKIEEAMDGSET
PQLFTVLPEKRTATVGGAMMGSTHIYDMSTVMSRKGPAPELQGVEVALAPEELELDPMAM
TQKYEEHVREQQAQVEKEDFSDMVAEHAAKQKQKKRKAQPQDSRGGSKKYKEFKF
Sequence of entity 9 (B3), FASTA
>9ZE3_9 Splicing factor 3B subunit 3 (chains B3)
MFLYNLTLQRATGISFAIHGNFSGTKQQEIVVSRGKILELLRPDPNTGKVHTLLTVEVFG
VIRSLMAFRLTGGTKDYIVVGSDSGRIVILEYQPSKNMFEKIHQETFGKSGCRRIVPGQF
LAVDPKGRAVMISAIEKQKLVYILNRDAAARLTISSPLEAHKANTLVYHVVGVDVGFENP
MFACLEMDYEEADNDPTGEAAANTQQTLTFYELDLGLNHVVRKYSEPLEEHGNFLITVPG
GSDGPSGVLICSENYITYKNFGDQPDIRCPIPRRRNDLDDPERGMIFVCSATHKTKSMFF
FLAQTEQGDIFKITLETDEDMVTEIRLKYFDTVPVAAAMCVLKTGFLFVASEFGNHYLYQ
IAHLGDDDEEPEFSSAMPLEEGDTFFFQPRPLKNLVLVDELDSLSPILFCQIADLANEDT
PQLYVACGRGPRSSLRVLRHGLEVSEMAVSELPGNPNAVWTVRRHIEDEFDAYIIVSFVN
ATLVLSIGETVEEVTDSGFLGTTPTLSCSLLGDDALVQVYPDGIRHIRADKRVNEWKTPG
KKTIVKCAVNQRQVVIALTGGELVYFEMDPSGQLNEYTERKEMSADVVCMSLANVPPGEQ
RSRFLAVGLVDNTVRIISLDPSDCLQPLSMQALPAQPESLCIVEMGGTEKQDELGERGSI
GFLYLNIGLQNGVLLRTVLDPVTGDLSDTRTRYLGSRPVKLFRVRMQGQEAVLAMSSRSW
LSYSYQSRFHLTPLSYETLEFASGFASEQCPEGIVAISTNTLRILALEKLGAVFNQVAFP
LQYTPRKFVIHPESNNLIIIETDHNAYTEATKAQRKQQMAEEMVEAAGEDERELAAEMAA
AFLNENLPESIFGAPKAGNGQWASVIRVMNPIQGNTLDLVQLEQNEAAFSVAVCRFSNTG
EDWYVLVGVAKDLILNPRSVAGGFVYTYKLVNNGEKLEFLHKTPVEEVPAAIAPFQGRVL
IGVGKLLRVYDLGKKKLLRKCENKHIANYISGIQTIGHRVIVSDVQESFIWVRYKRNENQ
LIIFADDTYPRWVTTASLLDYDTVAGADKFGNICVVRLPPNTNDEVDEDPTGNKALWDRG
LLNGASQKAEVIMNYHVGETVLSLQKTTLIPGGSESLVYTTLSGGIGILVPFTSHEDHDF
FQHVEMHLRSEHPPLCGRDHLSFRSYYFPVKNVIDGDLCEQFNSMEPNKQKNVSEELDRT
PPEVSKKLEDIRTRYAF
Sequence of entity 10 (B4), FASTA
>9ZE3_10 Splicing factor 3B subunit 4 (chains B4)
MAAGPISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVE
FLSEEDADYAIKIMNMIKLYGKPIRVNKASAHNKNLDVGANIFIGNLDPEIDEKLLYDTF
SAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFKK
DSKGERHGSAAERLLAAQNPLSQADRPHQLFADAPPPPSAPNPVVSSLGSGLPPPGMPPP
GSFPPPVPPPGALPPGIPPAMPPPPMPPGAAGHGPPSAGTPGAGHPGHGHSHPHPFPPGG
MPHPGMSQMQLAHHGPHGLGHPHAGPPGSGGQPPPRPPPGMPHPGPPPMGMPPRGPPFGS
PMGHPGPMPPHGMRGPPPLMPPHGYTGPPRPPPYGYQRGPLPPPRPTPRPPVPPRGPLRG
PLPQ
Sequence of entity 11 (B5), FASTA
>9ZE3_11 Splicing factor 3B subunit 5 (chains B5)
MTDRYTIHSQLEHLQSKYIGTGHADTTKWEWLVNQHRDSYCSYMGHFDLLNYFAIAENES
KARVRFNLMEKMLQPCGPPADKPEEN
Sequence of entity 12 (B6), FASTA
>9ZE3_12 Splicing factor 3B subunit 6 (chains B6)
MAMQAAKRANIRLPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTA
YVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLLKEKYGIN
TDPPK
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| ZN | Zinc ion | Zn | 3 |
Primary citation
The tumour suppressor RBM5 activates the helicase DHX15 to regulate splicing. Liu, S., Su, T., Huang, J. et al. bioRxiv (2026). DOI 10.64898/2026.03.26.714623 · PubMed
Other PDB entries of the same protein (UniProt P52756 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 7PCV 2.42 Å, Crystal structure of RBM5 RRM1-zinc finger
- 9ZE2 3.26 Å, Cryo-EM structure of the endogenous U2/branchpoint spliceosomal complex (core)
- 9ZE0 3.43 Å, Cryo-EM structure of the endogenous U2/branchpoint spliceosomal complex (Proximal DHX15…
- 7PDV 3.49 Å, Crystal structure of RBM5 RRM1-zinc finger in complex with RNA
- 9ZEC 3.61 Å, Cryo-EM structure of the endogenous U2/branchpoint spliceosomal complex (SF3A state 1)
- 9ZED 3.94 Å, Cryo-EM structure of the endogenous U2/branchpoint spliceosomal complex (SF3A state 2)
- 2LK0 Solution structure and binding studies of the RanBP2-type zinc finger of RBM5
- 2LK1 Solution structure and binding studies of the RanBP2-type zinc finger of RBM5
- 2LKZ Solution structure of the second RRM domain of RBM5
- 5MF9 Solution structure of the RBM5 OCRE domain in complex with polyproline SmN peptide.
- 5MFY RBM5 OCRE domain
Browse structure collections
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