MolNFT v1 · #123843 · protein
Crystal structure of mglb-2 (TP0684) from treponema pallidum
5JX2 · GLUCOSE/GALACTOSE-binding lipoprotein: “Crystal structure of mglb-2 (TP0684) from treponema pallidum”. X-ray diffraction, 1 ligand (CA), 1 pocket (best druggability 0.64). MolNFT v1 #123843 on GenesisL1: 3D structure, binding sites…
- PDB
- 5JX2
- Type
- protein
- Length
- 366 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GLUCOSE/GALACTOSE-binding lipoprotein
- UniProt
- Q08255
- Ligands
- CA
- Pockets
- 1 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 35% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GLUCOSE/GALACTOSE-binding lipoprotein | protein | 366 | 35% helix, 22% strand | Q08255 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A
- EDO · 1,2-ethanediol · additive · 2 copies · chains A
- BTB · 2-[bis-(2-hydroxy-ethyl)-amino]-2-hydroxymethyl-propane-1,3-diol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 468 | 0.64 | 0.77 | 56 | EDO |
Modifications
Observed in the structure: 1 modified (acetylation).
Compared structures
- 5JX2 · Crystal structure of MglB-2 (Tp0684) from Treponema pallidum · the same entry in another collection · chain A against A, TM-score 1.00
- Q08255 · AlphaFold monomer V2.0 prediction for GLUCOSE/GALACTOSE-binding lipoprotein (Q08255) · a predicted model of the same protein · chain A against A, TM-score 0.78
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 Q08255
- Elsewhere: RCSB PDB 5JX2 · PDBe 5JX2 · UniProt Q08255
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