MolNFT v1 · #127872 · protein
Core mediator of transcriptional regulation
5N9J · Mediator of RNA polymerase II transcription subunit 14: “Core mediator of transcriptional regulation”. X-ray diffraction, 20 pockets (best druggability 0.83). MolNFT v1 #127872 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5N9J
- Type
- protein
- Length
- 2,929 residues
- Chains
- 15
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mediator of RNA polymerase II transcription subunit 14; Mediator of RNA polymerase II…
- UniProt
- Q9P7Y4, P87310, Q9Y7N2, O94376, O60104, O13964, Q9Y821, Q9USH1, Q9US45, O94646, Q9P6Q0, P87306, O14198, Q10317, O14010
- Pockets
- 20 · best druggability 0.83
Structure
x-ray diffraction · 15 distinct chains · 56% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mediator of RNA polymerase II transcription subunit 14 | protein | 566 | 51% helix, 19% strand | Q9P7Y4 |
| B | Mediator of RNA polymerase II transcription subunit 10 | protein | 133 | 83% helix, 3% strand | P87310 |
| C | Mediator of RNA polymerase II transcription subunit 19 | protein | 111 | 31% helix, 3% strand | Q9Y7N2 |
| D | Mediator of RNA polymerase II transcription subunit 21 | protein | 135 | 79% helix, 0% strand | O94376 |
| E | Mediator of RNA polymerase II transcription subunit 7 | protein | 201 | 67% helix, 4% strand | O60104 |
| F | Mediator complex subunit 9 | protein | 79 | 77% helix, 0% strand | O13964 |
| G | Mediator of RNA polymerase II transcription subunit 4 | protein | 163 | 72% helix, 1% strand | Q9Y821 |
| R | Mediator of RNA polymerase II transcription subunit 31 | protein | 99 | 78% helix, 0% strand | Q9USH1 |
| S | Mediator of RNA polymerase II transcription subunit 6 | protein | 171 | 46% helix, 25% strand | Q9US45 |
| U | Mediator of RNA polymerase II transcription subunit 8 | protein | 198 | 76% helix, 3% strand | O94646 |
| V | Mediator of RNA polymerase II transcription subunit 11 | protein | 99 | 76% helix, 0% strand | Q9P6Q0 |
| W | Mediator of RNA polymerase II transcription subunit 17 | protein | 463 | 46% helix, 18% strand | P87306 |
| X | Mediator of RNA polymerase II transcription subunit 18 | protein | 207 | 25% helix, 39% strand | O14198 |
| Y | Mediator of RNA polymerase II transcription subunit 20 | protein | 185 | 28% helix, 36% strand | Q10317 |
| Z | Mediator of RNA polymerase II transcription subunit 22 | protein | 119 | 71% helix, 0% strand | O14010 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 957 | 0.83 | 0.84 | 90 | empty |
| 2 | 504 | 0.81 | 0.87 | 48 | empty |
| 3 | 1014 | 0.79 | 0.81 | 115 | empty |
| 4 | 950 | 0.77 | 0.80 | 105 | empty |
| 5 | 419 | 0.73 | 0.83 | 47 | empty |
Interfaces
50 interfaces between chains.
- W–Z · 2599 Ų buried · 25 hydrogen bonds · protein-protein
- D–E · 2575 Ų buried · 18 hydrogen bonds · protein-protein
- A–W · 2565 Ų buried · 30 hydrogen bonds · protein-protein
- U–W · 2430 Ų buried · 31 hydrogen bonds · protein-protein
- A–C · 2335 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 5N9J · Core Mediator of transcriptional regulation · the same entry in another collection · chain S against S, 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 Q9P7Y4
- Every structure of UniProt P87310
- Every structure of UniProt Q9Y7N2
- Every structure of UniProt O94376
- Every structure of UniProt O60104
- Every structure of UniProt O13964
- Every structure of UniProt Q9Y821
- Every structure of UniProt Q9USH1
- Every structure of UniProt Q9US45
- Every structure of UniProt O94646
- Every structure of UniProt Q9P6Q0
- Every structure of UniProt P87306
- Every structure of UniProt O14198
- Every structure of UniProt Q10317
- Every structure of UniProt O14010
- Elsewhere: RCSB PDB 5N9J · PDBe 5N9J · UniProt Q9P7Y4 · UniProt P87310 · UniProt Q9Y7N2 · UniProt O94376 · UniProt O60104 · UniProt O13964 · UniProt Q9Y821 · UniProt Q9USH1 · UniProt Q9US45 · UniProt O94646 · UniProt Q9P6Q0 · UniProt P87306 · UniProt O14198 · UniProt Q10317 · UniProt O14010
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