MolNFT v1 · #15254 · protein
Trypanosoma rangeli sialidase
1MZ5: “Trypanosoma rangeli sialidase”. X-ray diffraction, 1 ligand (NAG), 4 pockets (best druggability 0.58). MolNFT v1 #15254 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1MZ5
- Type
- protein
- Length
- 622 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sialidase
- EC
- 3.2.1.18
- UniProt
- O44049
- Ligands
- NAG
- Pockets
- 4 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 7% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sialidase (EC 3.2.1.18) | protein | 622 | 7% helix, 47% strand | O44049 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 5 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 244 | 0.58 | 0.79 | 36 | empty |
| 2 | 237 | 0.57 | 0.79 | 30 | empty |
| 3 | 71 | 0.31 | 0.74 | 17 | empty |
| 4 | 59 | 0.25 | 0.72 | 20 | empty |
Modifications
Observed in the structure: 5 glycan, 1 disulfide (N-glycosylation, disulfide).
Compared structures
- 1MZ5 · Trypanosoma rangeli sialidase · 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 O44049
- Elsewhere: RCSB PDB 1MZ5 · PDBe 1MZ5 · UniProt O44049
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