MolNFT v1 · #29602 · protein
Ubiquitin-conjugating enzyme E2S
1ZDN: “Ubiquitin-conjugating enzyme E2S”. X-ray diffraction, 1 ligand (NA), 1 pocket (best druggability 0.55). MolNFT v1 #29602 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1ZDN
- Type
- protein
- Length
- 298 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin-conjugating enzyme E2S
- EC
- 6.3.2.19
- UniProt
- Q16763
- Ligands
- NA
- Pockets
- 1 · best druggability 0.55
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin-conjugating enzyme E2S (EC 6.3.2.19) | protein | 151 | 40% helix, 17% strand | Q16763 |
| B | Ubiquitin-conjugating enzyme E2S (EC 6.3.2.19) | protein | 147 | 40% helix, 17% strand | Q16763 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 182 | 0.55 | 0.79 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 1152 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
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 Q16763
- Elsewhere: RCSB PDB 1ZDN · PDBe 1ZDN · UniProt Q16763
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