Research workbench
Cryo-EM structure of the intron-lariat spliceosome ready for disassembly from S.CEREVISIAE at 3.5 ångström
Analyse Cryo-EM structure of the intron-lariat spliceosome ready for disassembly from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5Y88
- Type
- protein + RNA
- Length
- 9,450 residues
- Chains
- 44
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P33334, P36048, Q06091, Q04048, Q12309, Q03654, P53277, P25337, P38241, Q12046, Q12417, Q03772, P28004, P28320, P40968, P52868, Q06411, P36118, P53131, P40018, Q12330, P54999, P40204, P43321, Q02260, Q06217, Q08963, P40567, P32523
- Ligands
- IHP, GTP, MG, ZN
Structure
electron microscopy · 39 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 1903 | — | P33334 |
| B | — | rna | 117 | — | — |
| C | — | protein | 913 | — | P36048 |
| D | — | rna | 101 | — | — |
| E | — | rna | 28 | — | — |
| F | — | rna | 82 | — | — |
| G | — | protein | 155 | — | Q06091 |
| H | — | protein | 601 | — | Q04048 |
| I | — | protein | 541 | — | Q12309 |
| J | — | protein | 431 | — | Q03654 |
| K | — | protein | 102 | — | P53277 |
| L | — | protein | 157 | — | P25337 |
| M | — | protein | 182 | — | P38241 |
| N | — | protein | 261 | — | Q12046 |
| O | — | protein | 337 | — | Q12417 |
| P | — | protein | 68 | — | Q03772 |
| Q | — | protein | 201 | — | P28004 |
| R | — | protein | 46 | — | P28320 |
| S | — | protein | 23 | — | P40968 |
| T | — | protein | 107 | — | P52868 |
| U | — | protein | 488 | — | Q06411 |
| V | — | protein | 91 | — | P36118 |
| W | — | protein | 708 | — | P53131 |
| a | — | protein | 80 | — | P40018 |
| b, i | — | protein | 75 | — | Q12330 |
| c, j | — | protein | 70 | — | P54999 |
| d, k | — | protein | 69 | — | P40204 |
| e, l | — | protein | 82 | — | P43321 |
| f, m | — | protein | 82 | — | Q02260 |
| g | — | protein | 94 | — | Q06217 |
| o | — | protein | 135 | — | Q08963 |
| p | — | protein | 81 | — | P40567 |
| h | — | protein | 78 | — | P40018 |
| n | — | protein | 65 | — | Q06217 |
| q | — | protein | 126 | — | P32523 |
| r | — | protein | 129 | — | P32523 |
| s | — | protein | 129 | — | P32523 |
| t | — | protein | 125 | — | P32523 |
| x | — | rna | 9 | — | — |
Ligands and binding sites
- IHP · Inositol hexakisphosphate · ligand · chains A
- GTP · Guanosine-5'-triphosphate · ligand · chains C
- MG · Magnesium ion · metal · 6 copies · chains C, D
- ZN · Zinc ion · metal · 6 copies · chains L, M, N
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5Y88 · Cryo-EM structure of the intron-lariat spliceosome ready for disassembly from… · the same entry in another collection · chain K against K, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P33334
- Every structure of UniProt P36048
- Every structure of UniProt Q06091
- Every structure of UniProt Q04048
- Every structure of UniProt Q12309
- Every structure of UniProt Q03654
- Every structure of UniProt P53277
- Every structure of UniProt P25337
- Every structure of UniProt P38241
- Every structure of UniProt Q12046
- Every structure of UniProt Q12417
- Every structure of UniProt Q03772
- Every structure of UniProt P28004
- Every structure of UniProt P28320
- Every structure of UniProt P40968
- Every structure of UniProt P52868
- Every structure of UniProt Q06411
- Every structure of UniProt P36118
- Every structure of UniProt P53131
- Every structure of UniProt P40018
- Every structure of UniProt Q12330
- Every structure of UniProt P54999
- Every structure of UniProt P40204
- Every structure of UniProt P43321
- Every structure of UniProt Q02260
- Every structure of UniProt Q06217
- Every structure of UniProt Q08963
- Every structure of UniProt P40567
- Every structure of UniProt P32523
- Elsewhere: RCSB PDB 5Y88 · PDBe 5Y88 · UniProt P33334 · UniProt P36048 · UniProt Q06091 · UniProt Q04048 · UniProt Q12309 · UniProt Q03654 · UniProt P53277 · UniProt P25337 · UniProt P38241 · UniProt Q12046 · UniProt Q12417 · UniProt Q03772 · UniProt P28004 · UniProt P28320 · UniProt P40968 · UniProt P52868 · UniProt Q06411 · UniProt P36118 · UniProt P53131 · UniProt P40018 · UniProt Q12330 · UniProt P54999 · UniProt P40204 · UniProt P43321 · UniProt Q02260 · UniProt Q06217 · UniProt Q08963 · UniProt P40567 · UniProt P32523
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