MolNFT v1 · #101075 · protein
Factor viia in complex with the inhibitor (2R)-2-[(1-aminoisoquinolin- 6-YL)AMINO]-2-[3-ethoxy-4-(propan-2-YLOXY)PHENYL]-N-(3- SULFAMOYLBENZYL)ETHANAMIDE
4NG9 · Factor viia (heavy chain): “Factor viia in complex with the inhibitor (2R)-2-[(1-aminoisoquinolin…”. X-ray diffraction, 3 ligands (2KE, CA, SO4), 3 pockets (best druggability 0.40). MolNFT v1 #101075 on GenesisL1: 3D structure…
- PDB
- 4NG9
- Type
- protein
- Length
- 304 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Factor viia (heavy chain); Factor viia (light chain)
- EC
- 3.4.21.21
- UniProt
- P08709
- Ligands
- 2KE, CA, SO4
- Pockets
- 3 · best druggability 0.40
Structure
x-ray diffraction · 2 distinct chains · 15% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Factor viia (heavy chain) (EC 3.4.21.21) | protein | 250 | 16% helix, 37% strand | P08709 |
| L | Factor viia (light chain) | protein | 54 | 15% helix, 26% strand | P08709 |
Ligands and binding sites
- 2KE · (2R)-2-[(1-aminoisoquinolin-6-yl)amino]-2-[3-ethoxy-4-(propan-2-yloxy)phenyl]-N-(3-sulfamoylbenzyl)ethanamide · ligand · chains H
- CA · Calcium ion · metal · chains H
- SO4 · Sulfate ion · ion · 5 copies · chains H, L
- GOL · Glycerol · additive · chains H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 101 | 0.40 | 0.77 | 25 | 2KE |
| 2 | 96 | 0.37 | 0.75 | 22 | SO4 |
| 3 | 56 | 0.28 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- H–L · 1041 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 4NG9 · Factor viia in complex with the inhibitor (2R)-2-[(1-aminoisoquinolin-6-yl)amino]-2-[3-eth… · the same entry in another collection · chain H against H, TM-score 1.00
- P08709 · AlphaFold monomer V2.0 prediction for coagulation factor VII (P08709) · a predicted model of the same protein · chain H 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 P08709
- Elsewhere: RCSB PDB 4NG9 · PDBe 4NG9 · UniProt P08709
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