MolNFT v1 · #119814 · protein
Crystal structure of USP7 with RNF169 peptide
5GG4 · Ubiquitin carboxyl-terminal hydrolase 7: “Crystal structure of USP7 with RNF169 peptide”. X-ray diffraction, 12 pockets (best druggability 0.82). MolNFT v1 #119814 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5GG4
- Type
- protein
- Length
- 1,131 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin carboxyl-terminal hydrolase 7; Peptide from E3 ubiquitin-protein ligase RNF169
- EC
- 3.4.19.12, 6.3.2.-
- UniProt
- Q93009, Q8NCN4
- Pockets
- 12 · best druggability 0.82
Structure
x-ray diffraction · 8 distinct chains · 21% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin carboxyl-terminal hydrolase 7 (EC 3.4.19.12) | protein | 313 | 24% helix, 30% strand | Q93009 |
| B | Ubiquitin carboxyl-terminal hydrolase 7 (EC 3.4.19.12) | protein | 317 | 21% helix, 31% strand | Q93009 |
| C | Ubiquitin carboxyl-terminal hydrolase 7 (EC 3.4.19.12) | protein | 231 | 20% helix, 33% strand | Q93009 |
| D | Ubiquitin carboxyl-terminal hydrolase 7 (EC 3.4.19.12) | protein | 228 | 21% helix, 34% strand | Q93009 |
| E | Peptide from E3 ubiquitin-protein ligase RNF169 (EC 6.3.2.-) | protein | 11 | 0% helix, 0% strand | Q8NCN4 |
| F | Peptide from E3 ubiquitin-protein ligase RNF169 (EC 6.3.2.-) | protein | 9 | 0% helix, 0% strand | Q8NCN4 |
| G | Peptide from E3 ubiquitin-protein ligase RNF169 (EC 6.3.2.-) | protein | 10 | 0% helix, 0% strand | Q8NCN4 |
| H | Peptide from E3 ubiquitin-protein ligase RNF169 (EC 6.3.2.-) | protein | 12 | 0% helix, 0% strand | Q8NCN4 |
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1120 | 0.82 | 0.83 | 96 | empty |
| 2 | 474 | 0.72 | 0.82 | 33 | empty |
| 3 | 575 | 0.69 | 0.78 | 37 | empty |
| 4 | 451 | 0.69 | 0.80 | 53 | empty |
| 5 | 247 | 0.53 | 0.76 | 31 | empty |
Interfaces
13 interfaces between chains.
- A–E · 799 Ų buried · 14 hydrogen bonds · protein-protein
- D–H · 764 Ų buried · 14 hydrogen bonds · protein-protein
- C–G · 706 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 696 Ų buried · 5 hydrogen bonds · protein-protein
- B–F · 639 Ų buried · 11 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 Q93009
- Every structure of UniProt Q8NCN4
- Elsewhere: RCSB PDB 5GG4 · PDBe 5GG4 · UniProt Q93009 · UniProt Q8NCN4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.