Research workbench
Structure of the UBCH5 :chip U-box complex
Analyse Structure of the UBCH5 :chip U-box complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OXQ
- Type
- protein
- Length
- 442 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin-conjugating enzyme E2D 1; STIP1 homology and U-box containing protein 1
- EC
- 6.3.2.19
- UniProt
- Q6PC58, Q7ZTZ6
- Ligands
- CL
- Pockets
- 4 · best druggability 0.41
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Ubiquitin-conjugating enzyme E2D 1 (EC 6.3.2.19) | protein | 149 | 34% helix, 19% strand | Q6PC58 |
| C, D | STIP1 homology and U-box containing protein 1 | protein | 72 | 40% helix, 17% strand | Q7ZTZ6 |
Ligands and binding sites
- CL · Chloride ion · ion · 3 copies · chains C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 142 | 0.41 | 0.74 | 24 | empty |
| 2 | 87 | 0.39 | 0.76 | 14 | empty |
| 3 | 60 | 0.30 | 0.75 | 12 | empty |
| 4 | 51 | 0.27 | 0.74 | 8 | empty |
Interfaces
3 interfaces between chains.
- B–D · 691 Ų buried · 5 hydrogen bonds · protein-protein
- C–D · 672 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 591 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 2OXQ · Structure of the UbcH5 :CHIP U-box complex · 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 Q6PC58
- Every structure of UniProt Q7ZTZ6
- Elsewhere: RCSB PDB 2OXQ · PDBe 2OXQ · UniProt Q6PC58 · UniProt Q7ZTZ6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.