Research workbench
Murine 6A6 Fab in complex with humanized anti-tissue factor D3H44 Fab
Analyse Murine 6A6 Fab in complex with humanized anti-tissue factor D3H44 Fab in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1PG7
- Type
- protein
- Length
- 1,712 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Humanized antibody D3H44; Murine antibody 6A6 Fab fragment
- Pockets
- 19 · best druggability 0.66
Structure
x-ray diffraction · 4 distinct chains · 7% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H, I | Humanized antibody D3H44 | protein | 213 | 8% helix, 54% strand | — |
| L, M | Humanized antibody D3H44 | protein | 213 | 5% helix, 50% strand | — |
| W, Y | Murine antibody 6A6 Fab fragment | protein | 210 | 8% helix, 55% strand | — |
| X, Z | Murine antibody 6A6 Fab fragment | protein | 220 | 7% helix, 51% strand | — |
Pockets
19 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 626 | 0.66 | 0.76 | 56 | empty |
| 2 | 556 | 0.63 | 0.75 | 63 | empty |
| 3 | 221 | 0.55 | 0.78 | 34 | empty |
| 4 | 322 | 0.53 | 0.74 | 41 | empty |
| 5 | 204 | 0.53 | 0.77 | 28 | empty |
Interfaces
14 interfaces between chains.
- W–X · 1975 Ų buried · 12 hydrogen bonds · protein-protein
- Y–Z · 1945 Ų buried · 9 hydrogen bonds · protein-protein
- I–M · 1715 Ų buried · 13 hydrogen bonds · protein-protein
- H–L · 1710 Ų buried · 12 hydrogen bonds · protein-protein
- L–X · 467 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 1PG7 · Murine 6A6 Fab in complex with humanized anti-Tissue Factor D3H44 Fab · the same entry in another collection · chain H against H, 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
- Elsewhere: RCSB PDB 1PG7 · PDBe 1PG7
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