Research workbench
3D structure determination of the HUMAN*U4/U6.U5* tri-snrnp complex
Analyse 3D structure determination of the HUMAN*U4/U6.U5* tri-snrnp complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3JCR
- Type
- protein
- Length
- 9,200 residues
- Chains
- 33
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HPRP6; U5-40K; HBRR2; HDIM1; HPRP8; HPRP28; HSNU114; Smb; SMD1; SMD2; SMD3; Sme; Smf…
- EC
- 3.6.4.13
- UniProt
- O94906, Q96DI7, O75643, P83876, Q6P2Q9, Q9BUQ8, Q15029, P14678, P62314, P62316, P62318, P62304, P62306, P62308, O95777, P62312, Q9Y4Y9, Q9Y4Z0, P62310, Q9Y333, Q9UK45, O43395, Q5T1M7, Q8WWY3, P55769, Q53GS9
- Pockets
- 16 · best druggability 0.52
Structure
electron microscopy · 28 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| G | HPRP6 | protein | 418 | 0% helix, 0% strand | O94906 |
| D | U5-40K | protein | 302 | 0% helix, 0% strand | Q96DI7 |
| C | HBRR2 (EC 3.6.4.13) | protein | 1885 | 0% helix, 0% strand | O75643 |
| E | HDIM1 | protein | 135 | 0% helix, 0% strand | P83876 |
| A | HPRP8 | protein | 2222 | 0% helix, 0% strand | Q6P2Q9 |
| F | HPRP28 (EC 3.6.4.13) | protein | 435 | 0% helix, 0% strand | Q9BUQ8 |
| B | HSNU114 | protein | 844 | 0% helix, 0% strand | Q15029 |
| O, o | Smb | protein | 89 | 0% helix, 0% strand | P14678 |
| P | SMD1 | protein | 93 | 0% helix, 0% strand | P62314 |
| Q, q | SMD2 | protein | 89 | 0% helix, 0% strand | P62316 |
| R, r | SMD3 | protein | 88 | 0% helix, 0% strand | P62318 |
| S, s | Sme | protein | 78 | 0% helix, 0% strand | P62304 |
| T | Smf | protein | 73 | 0% helix, 0% strand | P62306 |
| U, u | Smg | protein | 73 | 0% helix, 0% strand | P62308 |
| 8 | LSM8 | protein | 70 | 0% helix, 0% strand | O95777 |
| 6 | LSM6 | protein | 70 | 0% helix, 0% strand | P62312 |
| 5 | LSM5 | protein | 76 | 0% helix, 0% strand | Q9Y4Y9 |
| 4 | LSM4 | protein | 80 | 0% helix, 0% strand | Q9Y4Z0 |
| 3 | LSM3 | protein | 83 | 0% helix, 0% strand | P62310 |
| 2 | LSM2 | protein | 90 | 0% helix, 0% strand | Q9Y333 |
| 7 | LSM7 | protein | 79 | 0% helix, 0% strand | Q9UK45 |
| K | HPRP3 | protein | 131 | 0% helix, 0% strand | O43395 |
| L | HPRP4 | protein | 307 | 0% helix, 0% strand | Q5T1M7 |
| J | HPRP31 | protein | 239 | 0% helix, 0% strand | Q8WWY3 |
| I | HSNU13 | protein | 126 | 0% helix, 0% strand | P55769 |
| p | SMD1 | protein | 94 | 0% helix, 0% strand | P62314 |
| t | Smf | protein | 83 | 0% helix, 0% strand | P62306 |
| V | HSAD1 | protein | 431 | 0% helix, 0% strand | Q53GS9 |
Pockets
16 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 249 | 0.52 | 0.73 | 58 | empty |
| 2 | 168 | 0.47 | 0.74 | 35 | empty |
| 3 | 153 | 0.45 | 0.74 | 40 | empty |
| 4 | 155 | 0.44 | 0.73 | 44 | empty |
| 5 | 137 | 0.43 | 0.73 | 31 | empty |
Interfaces
36 interfaces between chains.
- A–B · 1032 Ų buried · 0 hydrogen bonds · protein-protein
- K–L · 671 Ų buried · 0 hydrogen bonds · protein-protein
- D–A · 321 Ų buried · 0 hydrogen bonds · protein-protein
- B–R · 265 Ų buried · 0 hydrogen bonds · protein-protein
- E–A · 247 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3JCR · 3D structure determination of the human*U4/U6.U5* tri-snRNP complex · the same entry in another collection · chain P against P, 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 O94906
- Every structure of UniProt Q96DI7
- Every structure of UniProt O75643
- Every structure of UniProt P83876
- Every structure of UniProt Q6P2Q9
- Every structure of UniProt Q9BUQ8
- Every structure of UniProt Q15029
- Every structure of UniProt P14678
- Every structure of UniProt P62314
- Every structure of UniProt P62316
- Every structure of UniProt P62318
- Every structure of UniProt P62304
- Every structure of UniProt P62306
- Every structure of UniProt P62308
- Every structure of UniProt O95777
- Every structure of UniProt P62312
- Every structure of UniProt Q9Y4Y9
- Every structure of UniProt Q9Y4Z0
- Every structure of UniProt P62310
- Every structure of UniProt Q9Y333
- Every structure of UniProt Q9UK45
- Every structure of UniProt O43395
- Every structure of UniProt Q5T1M7
- Every structure of UniProt Q8WWY3
- Every structure of UniProt P55769
- Every structure of UniProt Q53GS9
- Elsewhere: RCSB PDB 3JCR · PDBe 3JCR · UniProt O94906 · UniProt Q96DI7 · UniProt O75643 · UniProt P83876 · UniProt Q6P2Q9 · UniProt Q9BUQ8 · UniProt Q15029 · UniProt P14678 · UniProt P62314 · UniProt P62316 · UniProt P62318 · UniProt P62304 · UniProt P62306 · UniProt P62308 · UniProt O95777 · UniProt P62312 · UniProt Q9Y4Y9 · UniProt Q9Y4Z0 · UniProt P62310 · UniProt Q9Y333 · UniProt Q9UK45 · UniProt O43395 · UniProt Q5T1M7 · UniProt Q8WWY3 · UniProt P55769 · UniProt Q53GS9
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