MolNFT v1 · #63500 · protein
Structure of the mediator submodule MED7N/31
3FBN · Mediator of RNA polymerase II transcription subunit 7: “Structure of the mediator submodule MED7N/31”. X-ray diffraction, 4 pockets (best druggability 0.51). MolNFT v1 #63500 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 3FBN
- Type
- protein
- Length
- 290 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mediator of RNA polymerase II transcription subunit 7; Mediator of RNA polymerase II…
- UniProt
- Q08278, P38633
- Pockets
- 4 · best druggability 0.51
Structure
x-ray diffraction · 3 distinct chains · 55% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mediator of RNA polymerase II transcription subunit 7 | protein | 54 | 50% helix, 0% strand | Q08278 |
| B, D | Mediator of RNA polymerase II transcription subunit 31 | protein | 94 | 61% helix, 2% strand | P38633 |
| C | Mediator of RNA polymerase II transcription subunit 7 | protein | 48 | 48% helix, 0% strand | Q08278 |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 148 | 0.51 | 0.79 | 24 | empty |
| 2 | 83 | 0.40 | 0.78 | 16 | empty |
| 3 | 86 | 0.38 | 0.76 | 17 | empty |
| 4 | 69 | 0.33 | 0.76 | 15 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1306 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 1134 Ų buried · 14 hydrogen bonds · protein-protein
- B–D · 1032 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 90 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3FBN · Structure of the Mediator submodule Med7N/31 · the same entry in another collection · chain A against A, TM-score 1.00
- P38633 · AlphaFold monomer V2.0 prediction for mediator of RNA polymerase II transcription subunit… · a predicted model of the same protein · chain B against A, TM-score 0.84
- Q08278 · AlphaFold monomer V2.0 prediction for mediator of RNA polymerase II transcription subunit… · a predicted model of the same protein · chain A against A, TM-score 0.71
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 Q08278
- Every structure of UniProt P38633
- Elsewhere: RCSB PDB 3FBN · PDBe 3FBN · UniProt Q08278 · UniProt P38633
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