Research workbench
Klebsiella pneumoniae OMPK36
Analyse Klebsiella pneumoniae OMPK36 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5O79
- Type
- protein
- Length
- 1,027 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- OMPK36
- UniProt
- D6QLY0
- Ligands
- MG
- Pockets
- 11 · best druggability 0.79
Structure
x-ray diffraction · 3 distinct chains · 7% helix, 59% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | OMPK36 | protein | 341 | 6% helix, 58% strand | D6QLY0 |
| B | OMPK36 | protein | 344 | 6% helix, 60% strand | D6QLY0 |
| C | OMPK36 | protein | 342 | 9% helix, 60% strand | D6QLY0 |
Ligands and binding sites
- MG · Magnesium ion · metal · 3 copies · chains A, B, C
- C8E · (hydroxyethyloxy)tri(ethyloxy)octane · additive · 9 copies · chains A, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 109 | 0.79 | 0.97 | 22 | empty |
| 2 | 141 | 0.75 | 0.93 | 42 | empty |
| 3 | 1192 | 0.71 | 0.75 | 76 | empty |
| 4 | 1125 | 0.71 | 0.75 | 73 | empty |
| 5 | 1139 | 0.71 | 0.75 | 70 | empty |
Interfaces
3 interfaces between chains.
- A–C · 1662 Ų buried · 34 hydrogen bonds · protein-protein
- A–B · 1660 Ų buried · 35 hydrogen bonds · protein-protein
- B–C · 1655 Ų buried · 33 hydrogen bonds · protein-protein
Compared structures
- 5O79 · Klebsiella pneumoniae OmpK36 · 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 D6QLY0
- Elsewhere: RCSB PDB 5O79 · PDBe 5O79 · UniProt D6QLY0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.