Research workbench
Kdgm porin in complex with disordered oligogalacturonate
Analyse Kdgm porin in complex with disordered oligogalacturonate in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4PR7
- Type
- protein
- Length
- 171 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Oligogalacturonate-specific porin kdgm
- UniProt
- Q934G3
- Ligands
- ADA
- Pockets
- 1 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 0% helix, 76% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Oligogalacturonate-specific porin kdgm | protein | 171 | 0% helix, 76% strand | Q934G3 |
Ligands and binding sites
- ADA · alpha-D-galactopyranuronic acid · sugar · 5 copies · chains A
- OCT · N-octane · additive · 4 copies · chains A
- C8E · (hydroxyethyloxy)tri(ethyloxy)octane · additive · 2 copies · 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 | 1111 | 0.76 | 0.78 | 79 | ADA |
Compared structures
- 4PR7 · KdgM porin in complex with disordered oligogalacturonate · the same entry in another collection · chain A against A, TM-score 1.00
- Q934G3 · AlphaFold monomer V2.0 prediction for oligogalacturonate-specific porin kdgm (Q934G3) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 Q934G3
- Elsewhere: RCSB PDB 4PR7 · PDBe 4PR7 · UniProt Q934G3
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