MolNFT v1 · #127959 · protein
Structure of the distal domain of mouse adenovirus 2 fibre bound to N- acetyl-glucosamine
5NC1 · Fiber: “Structure of the distal domain of mouse adenovirus 2 fibre bound to N- acetyl-glucosamine”. X-ray diffraction, 2 ligands (NAG, SO4), 7 pockets (best druggability 0.84). MolNFT v1 #127959 on GenesisL1: 3D structure, binding…
- PDB
- 5NC1
- Type
- protein
- Length
- 579 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fiber
- UniProt
- E7CH51
- Ligands
- NAG, SO4
- Pockets
- 7 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 2% helix, 58% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Fiber | protein | 193 | 2% helix, 58% strand | E7CH51 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains A, B, C
- SO4 · Sulfate ion · ion · 11 copies · chains A, C, B
- GOL · Glycerol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 206 | 0.84 | 0.97 | 30 | SO4 |
| 2 | 202 | 0.62 | 0.82 | 26 | empty |
| 3 | 219 | 0.58 | 0.80 | 34 | SO4 |
| 4 | 168 | 0.56 | 0.81 | 26 | empty |
| 5 | 67 | 0.35 | 0.77 | 17 | empty |
Interfaces
3 interfaces between chains.
- B–C · 1971 Ų buried · 21 hydrogen bonds · protein-protein
- A–B · 1930 Ų buried · 23 hydrogen bonds · protein-protein
- A–C · 1908 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 5NC1 · Structure of the distal domain of mouse adenovirus 2 fibre bound to N-acetyl-glucosamine · 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 E7CH51
- Elsewhere: RCSB PDB 5NC1 · PDBe 5NC1 · UniProt E7CH51
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.