Research workbench
Crystal structure of human ppargamma ligand binding domain in complex with TRAP220 coactivator peptide
Analyse Crystal structure of human ppargamma ligand binding domain in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6DGP
- Type
- protein
- Length
- 542 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peroxisome proliferator-activated receptor gamma; TRAP220 coactivator peptide (mediator…
- UniProt
- P37231
- Pockets
- 9 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 67% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Peroxisome proliferator-activated receptor gamma | protein | 259 | 67% helix, 4% strand | P37231 |
| C, D | TRAP220 coactivator peptide (mediator of RNA polymerase II transcription subunit 1) | protein | 12 | 67% helix, 0% strand | — |
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 434 | 0.81 | 0.88 | 59 | empty |
| 2 | 93 | 0.76 | 0.97 | 22 | empty |
| 3 | 340 | 0.73 | 0.85 | 33 | empty |
| 4 | 442 | 0.66 | 0.78 | 48 | empty |
| 5 | 339 | 0.62 | 0.78 | 31 | empty |
Interfaces
3 interfaces between chains.
- A–B · 833 Ų buried · 6 hydrogen bonds · protein-protein
- B–D · 615 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 614 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 6DGP · Crystal Structure of Human PPARgamma Ligand Binding Domain in Complex with TRAP220… · the same entry in another collection · chain A against A, 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 P37231
- Elsewhere: RCSB PDB 6DGP · PDBe 6DGP · UniProt P37231
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.