Research workbench
Tailspike protein mutant E372Q of E. COLI bacteriophage HK620 in complex with pentasaccharide
Analyse Tailspike protein mutant E372Q of E. COLI bacteriophage HK620 in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4XOT
- Type
- protein
- Length
- 597 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tail spike protein
- UniProt
- Q9AYY6
- Ligands
- NDG, GLA, GLC, RAM, NAG, NA
- Pockets
- 3 · best druggability 0.47
Structure
x-ray diffraction · 1 distinct chain · 9% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tail spike protein | protein | 597 | 9% helix, 43% strand | Q9AYY6 |
Ligands and binding sites
- NDG · 2-acetamido-2-deoxy-alpha-D-glucopyranose · sugar · chains A
- GLA · alpha-D-galactopyranose · sugar · chains A
- GLC · alpha-D-glucopyranose · sugar · chains A
- RAM · alpha-L-rhamnopyranose · sugar · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- NA · Sodium ion · metal · 2 copies · chains A
- FMT · Formic acid · additive · 6 copies · chains A
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 147 | 0.47 | 0.78 | 35 | NDG |
| 2 | 118 | 0.44 | 0.77 | 16 | RAM, NAG |
| 3 | 83 | 0.33 | 0.74 | 18 | empty |
Compared structures
- 4XOT · Tailspike protein mutant E372Q of E. coli bacteriophage HK620 in complex with… · 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 Q9AYY6
- Elsewhere: RCSB PDB 4XOT · PDBe 4XOT · UniProt Q9AYY6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.