Research workbench
The structure of inactive prolegumain from chinese hamster, trigonal space group.
Analyse The structure of inactive prolegumain from chinese hamster, trigonal space… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4D3Z
- Type
- protein
- Length
- 390 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Prolegumain
- EC
- 3.4.22.34
- UniProt
- G3I1H5
- Ligands
- SNN, NAG
- Pockets
- 3 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Prolegumain (EC 3.4.22.34) | protein | 390 | 44% helix, 14% strand | G3I1H5 |
Ligands and binding sites
- SNN · L-3-aminosuccinimide · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 111 | 0.60 | 0.86 | 27 | empty |
| 2 | 111 | 0.51 | 0.81 | 22 | empty |
| 3 | 88 | 0.42 | 0.79 | 20 | empty |
Modifications
Observed in the structure: 3 glycan, 2 covalent, 2 disulfide, 1 modified (N-glycosylation, covalent ligand, disulfide, oxidation).
Compared structures
- 4D3Z · The structure of inactive prolegumain from chinese hamster, trigonal space group. · 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 G3I1H5
- Elsewhere: RCSB PDB 4D3Z · PDBe 4D3Z · UniProt G3I1H5
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.