Research workbench
Tail module of mediator complex
Analyse Tail module of mediator complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JMN
- Type
- protein
- Length
- 1,808 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mediator of RNA polymerase II transcription subunit 5; Mediator of RNA polymerase II…
- UniProt
- G0SGD2, G0SCL5, G0SEV7, G0SHL5
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 5 distinct chains · 30% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Mediator of RNA polymerase II transcription subunit 5 | protein | 584 | 42% helix, 0% strand | G0SGD2 |
| N | Mediator of RNA polymerase II transcription subunit 14 | protein | 198 | 35% helix, 15% strand | G0SCL5 |
| P | Mediator of RNA polymerase II transcription subunit 16 | protein | 810 | 18% helix, 15% strand | G0SEV7 |
| O | MED15 | protein | 164 | 54% helix, 0% strand | G0SHL5 |
| X | Unknown peptide | protein | 52 | 6% helix, 13% strand | — |
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 | 982 | 0.86 | 0.88 | 119 | empty |
| 2 | 512 | 0.82 | 0.88 | 84 | empty |
| 3 | 543 | 0.81 | 0.88 | 76 | empty |
| 4 | 262 | 0.80 | 0.93 | 53 | empty |
| 5 | 520 | 0.79 | 0.86 | 62 | empty |
Interfaces
5 interfaces between chains.
- E–P · 1946 Ų buried · 4 hydrogen bonds · protein-protein
- N–O · 1154 Ų buried · 10 hydrogen bonds · protein-protein
- P–X · 975 Ų buried · 3 hydrogen bonds · protein-protein
- N–P · 423 Ų buried · 4 hydrogen bonds · protein-protein
- P–O · 203 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7JMN · Tail module of Mediator complex · the same entry in another collection · chain E against E, 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 G0SGD2
- Every structure of UniProt G0SCL5
- Every structure of UniProt G0SEV7
- Every structure of UniProt G0SHL5
- Elsewhere: RCSB PDB 7JMN · PDBe 7JMN · UniProt G0SGD2 · UniProt G0SCL5 · UniProt G0SEV7 · UniProt G0SHL5
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