MolNFT v1 · #72688 · protein
N and GTPase domains of the signal sequence recognition protein ffh from thermus aquaticus
3NG1: “N and GTPase domains of the signal sequence recognition protein ffh from thermus aquaticus”. X-ray diffraction, 2 ligands (CD, SO4), 8 pockets (best druggability 0.67). MolNFT v1 #72688 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3NG1
- Type
- protein
- Length
- 588 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Signal sequence recognition protein ffh
- UniProt
- O07347
- Ligands
- CD, SO4
- Pockets
- 8 · best druggability 0.67
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Signal sequence recognition protein ffh | protein | 294 | 53% helix, 13% strand | O07347 |
Ligands and binding sites
- CD · Cadmium ion · metal · 6 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.67 | 0.90 | 25 | EDO |
| 2 | 108 | 0.66 | 0.89 | 24 | EDO |
| 3 | 139 | 0.64 | 0.87 | 30 | empty |
| 4 | 57 | 0.45 | 0.83 | 11 | empty |
| 5 | 65 | 0.45 | 0.82 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 577 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 3NG1 · N and GTPase domains of the signal sequence recognition protein ffh from thermus aquaticus · the same entry in another collection · chain A against A, TM-score 1.00
- O07347 · AlphaFold monomer V2.0 prediction for signal recognition particle protein (O07347) · 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 O07347
- Elsewhere: RCSB PDB 3NG1 · PDBe 3NG1 · UniProt O07347
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