Research workbench
The tip fimbrial protein MFA3 from porphyromonas gingivalis with C- terminal truncation.
Analyse The tip fimbrial protein MFA3 from porphyromonas gingivalis with C- terminal… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NF4
- Type
- protein
- Length
- 590 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Minor fimbrium tip subunit MFA3
- UniProt
- B2RHG3
- Ligands
- SO4
- Pockets
- 3 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain · 11% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Minor fimbrium tip subunit MFA3 | protein | 295 | 11% helix, 44% strand | B2RHG3 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- FMT · Formic acid · additive · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 405 | 0.66 | 0.79 | 46 | empty |
| 2 | 128 | 0.54 | 0.82 | 31 | empty |
| 3 | 99 | 0.52 | 0.83 | 28 | empty |
Interfaces
1 interface between chains.
- A–B · 1153 Ų buried · 17 hydrogen bonds · protein-protein
Compared structures
- 5NF4 · The tip fimbrial protein Mfa3 from Porphyromonas gingivalis with C-terminal truncation. · the same entry in another collection · chain A against A, TM-score 1.00
- B2RHG3 · AlphaFold monomer V2.0 prediction for minor fimbrium tip subunit MFA3 (B2RHG3) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 B2RHG3
- Elsewhere: RCSB PDB 5NF4 · PDBe 5NF4 · UniProt B2RHG3
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.