Research workbench
Bacterial oligosaccharyltransferase pglb
Analyse Bacterial oligosaccharyltransferase pglb in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3RCE
- Type
- protein
- Length
- 691 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Oligosaccharide transferase to N-glycosylate proteins; Substrate mimic peptide
- UniProt
- B9KDD4
- Ligands
- MG
- Pockets
- 8 · best druggability 0.55
Structure
x-ray diffraction · 2 distinct chains · 56% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Oligosaccharide transferase to N-glycosylate proteins | protein | 683 | 57% helix, 11% strand | B9KDD4 |
| B | Substrate mimic peptide | protein | 8 | 0% helix, 13% strand | — |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 141 | 0.55 | 0.81 | 21 | empty |
| 2 | 140 | 0.50 | 0.78 | 21 | empty |
| 3 | 183 | 0.49 | 0.77 | 26 | empty |
| 4 | 162 | 0.44 | 0.75 | 24 | empty |
| 5 | 61 | 0.37 | 0.78 | 11 | empty |
Interfaces
1 interface between chains.
- A–B · 790 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (nonstandard).
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 B9KDD4
- Elsewhere: RCSB PDB 3RCE · PDBe 3RCE · UniProt B9KDD4
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