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Crystal structure of UBCH5C
Analyse Crystal structure of UBCH5C in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1X23
- Type
- protein
- Length
- 611 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin-conjugating enzyme E2 D3
- EC
- 6.3.2.19
- UniProt
- P61077
- Pockets
- 5 · best druggability 0.78
Structure
x-ray diffraction · 3 distinct chains · 36% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin-conjugating enzyme E2 D3 (EC 6.3.2.19) | protein | 153 | 37% helix, 18% strand | P61077 |
| B, C | Ubiquitin-conjugating enzyme E2 D3 (EC 6.3.2.19) | protein | 152 | 36% helix, 20% strand | P61077 |
| D | Ubiquitin-conjugating enzyme E2 D3 (EC 6.3.2.19) | protein | 154 | 36% helix, 17% strand | P61077 |
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 549 | 0.78 | 0.85 | 62 | empty |
| 2 | 694 | 0.77 | 0.82 | 64 | empty |
| 3 | 572 | 0.71 | 0.79 | 76 | empty |
| 4 | 71 | 0.59 | 0.90 | 21 | empty |
| 5 | 52 | 0.26 | 0.74 | 12 | empty |
Interfaces
5 interfaces between chains.
- A–D · 612 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 595 Ų buried · 5 hydrogen bonds · protein-protein
- C–D · 591 Ų buried · 2 hydrogen bonds · protein-protein
- A–C · 501 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 492 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
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 P61077
- Elsewhere: RCSB PDB 1X23 · PDBe 1X23 · UniProt P61077
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