MolNFT v1 · #163021 · protein
P46, an immunodominant surface protein from mycoplasma hyopneumoniae
6RQG · 46 kda surface antigen: “P46, an immunodominant surface protein from mycoplasma hyopneumoniae”. X-ray diffraction, 1 ligand (NA), 11 pockets (best druggability 0.69). MolNFT v1 #163021 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6RQG
- Type
- protein
- Length
- 1,108 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 46 kda surface antigen
- UniProt
- P0C0J8
- Ligands
- NA
- Pockets
- 11 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 39% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 46 kda surface antigen | protein | 373 | 40% helix, 18% strand | P0C0J8 |
| C | 46 kda surface antigen | protein | 362 | 38% helix, 18% strand | P0C0J8 |
Ligands and binding sites
- NA · Sodium ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 99 | 0.69 | 0.92 | 19 | empty |
| 2 | 351 | 0.56 | 0.75 | 38 | empty |
| 3 | 375 | 0.55 | 0.74 | 40 | empty |
| 4 | 328 | 0.54 | 0.74 | 35 | empty |
| 5 | 262 | 0.50 | 0.74 | 34 | empty |
Interfaces
2 interfaces between chains.
- B–C · 256 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 92 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6RQG · P46, an immunodominant surface protein from Mycoplasma hyopneumoniae · the same entry in another collection · chain A against A, TM-score 1.00
- P0C0J8 · AlphaFold monomer V2.0 prediction for 46 kda surface antigen (P0C0J8) · a predicted model of the same protein · chain A against A, TM-score 0.82
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 P0C0J8
- Elsewhere: RCSB PDB 6RQG · PDBe 6RQG · UniProt P0C0J8
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