Research workbench
Engbf darpin fusion 4B G10
Analyse Engbf darpin fusion 4B G10 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6QFK
- Type
- protein
- Length
- 1,362 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pega domain-containing PROTEIN,PEGA domain-containing PROTEIN,ENGBF darpin fusion G10…
- UniProt
- A0A414FD23
- Ligands
- MN
- Pockets
- 14 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 21% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pega domain-containing PROTEIN,PEGA domain-containing PROTEIN,ENGBF darpin fusion G10 | protein | 1347 | 21% helix, 31% strand | A0A414FD23 |
| B | V3-if | protein | 15 | 0% helix, 40% strand | — |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 4 copies · chains A
- EDO · 1,2-ethanediol · additive · 11 copies · chains A
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 2 copies · chains A
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 358 | 0.75 | 0.86 | 79 | EDO |
| 2 | 72 | 0.74 | 0.98 | 26 | empty |
| 3 | 760 | 0.73 | 0.79 | 80 | empty |
| 4 | 237 | 0.52 | 0.76 | 31 | EDO |
| 5 | 182 | 0.51 | 0.77 | 25 | EDO |
Interfaces
1 interface between chains.
- A–B · 739 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 d-amino (D-amino acid).
Compared structures
- 6QFK · EngBF DARPin Fusion 4b G10 · 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 A0A414FD23
- Elsewhere: RCSB PDB 6QFK · PDBe 6QFK · UniProt A0A414FD23
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.