MolNFT v1 · #106632 · protein
Complex of UBC13 with the ring domain of the TRIM5ALPHA retroviral restriction factor
4TKP · Ubiquitin-conjugating enzyme E2 N: “Complex of UBC13 with the ring domain of the TRIM5ALPHA retroviral restriction factor”. X-ray diffraction, 2 ligands (ZN, SO4), 2 pockets (best druggability 0.38). MolNFT v1 #106632 on GenesisL1…
- PDB
- 4TKP
- Type
- protein
- Length
- 208 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin-conjugating enzyme E2 N; Tripartite motif-containing protein 5
- EC
- 6.3.2.19, 6.3.2.-
- UniProt
- P61088, Q0PF16
- Ligands
- ZN, SO4
- Pockets
- 2 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin-conjugating enzyme E2 N (EC 6.3.2.19) | protein | 145 | 35% helix, 18% strand | P61088 |
| B | Tripartite motif-containing protein 5 (EC 6.3.2.-) | protein | 63 | 29% helix, 16% strand | Q0PF16 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 72 | 0.38 | 0.78 | 14 | empty |
| 2 | 71 | 0.32 | 0.74 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 445 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 4TKP · Complex of Ubc13 with the RING domain of the TRIM5alpha retroviral restriction factor · the same entry in another collection · chain B against B, TM-score 1.00
- P61088 · AlphaFold monomer V2.0 prediction for ubiquitin-conjugating enzyme E2 N (P61088) · a predicted model of the same protein · chain A against A, TM-score 0.98
- Q0PF16 · AlphaFold monomer V2.0 prediction for tripartite motif-containing protein 5 (Q0PF16) · a predicted model of the same protein · chain B against A, TM-score 0.96
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 P61088
- Every structure of UniProt Q0PF16
- Elsewhere: RCSB PDB 4TKP · PDBe 4TKP · UniProt P61088 · UniProt Q0PF16
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.