Research workbench
Crystal structure of a glycosyltransferase involved in the glycosylation of the major capsid of pbcv-1
Analyse Crystal structure of a glycosyltransferase involved in the glycosylation of the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2P72
- Type
- protein
- Length
- 403 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative glycosyltransferase (mannosyltransferase) involved in glycosylating the pbcv-1…
- UniProt
- Q89399
- Ligands
- UPG, MN
- Pockets
- 3 · best druggability 0.62
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative glycosyltransferase (mannosyltransferase) involved in glycosylating the pbcv-1 major capsid protein | protein | 199 | 38% helix, 20% strand | Q89399 |
| B | Putative glycosyltransferase (mannosyltransferase) involved in glycosylating the pbcv-1 major capsid protein | protein | 204 | 37% helix, 17% strand | Q89399 |
Ligands and binding sites
- UPG · Uridine-5'-diphosphate-glucose · ligand · chains B
- MN · Manganese (II) ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 250 | 0.62 | 0.81 | 31 | UPG |
| 2 | 366 | 0.60 | 0.77 | 33 | MN |
| 3 | 301 | 0.52 | 0.74 | 38 | empty |
Interfaces
1 interface between chains.
- A–B · 148 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 2P72 · crystal structure of a glycosyltransferase involved in the glycosylation of the major… · 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 Q89399
- Elsewhere: RCSB PDB 2P72 · PDBe 2P72 · UniProt Q89399
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.