Research workbench
Analysis of a new family of widely distributed metal-independent alpha-mannosidases provides unique insight into the processing of N- linked glycans, streptococcus pneumoniae SP_2144 apo-structure
Analyse Analysis of a new family of widely distributed metal-independent… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3QPF
- Type
- protein
- Length
- 852 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative uncharacterized protein
- UniProt
- Q97NA8
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Putative uncharacterized protein | protein | 426 | 47% helix, 12% strand | Q97NA8 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 17 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1034 | 0.73 | 0.76 | 67 | empty |
| 2 | 251 | 0.56 | 0.78 | 23 | EDO |
| 3 | 223 | 0.54 | 0.77 | 25 | EDO |
| 4 | 123 | 0.47 | 0.79 | 24 | empty |
| 5 | 132 | 0.47 | 0.78 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 598 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 3QPF · Analysis of a New Family of Widely Distributed Metal-independent alpha-Mannosidases… · 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 Q97NA8
- Elsewhere: RCSB PDB 3QPF · PDBe 3QPF · UniProt Q97NA8
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