MolNFT v1 · #52726 · protein
Structure of Fab fragment of the icsm 18 - anti-prp therapeutic antibody at 1.57 a resolution.
2W9D · Icsm 18-anti-prp therapeutic Fab heavy chain: “Structure of Fab fragment of the icsm 18 - anti-prp therapeutic antibody at 1.57 a resolution.”. X-ray diffraction, 1 ligand (CA), 4 pockets (best druggability 0.62). MolNFT v1 #52726…
- PDB
- 2W9D
- Type
- protein
- Length
- 426 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Icsm 18-anti-prp therapeutic Fab heavy chain; Icsm 18-anti-prp therapeutic Fab light chain
- Ligands
- CA
- Pockets
- 4 · best druggability 0.62
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Icsm 18-anti-prp therapeutic Fab heavy chain | protein | 215 | 6% helix, 51% strand | — |
| L | Icsm 18-anti-prp therapeutic Fab light chain | protein | 211 | 7% helix, 51% strand | — |
Ligands and binding sites
- CA · Calcium ion · metal · chains H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 588 | 0.62 | 0.74 | 66 | empty |
| 2 | 153 | 0.47 | 0.77 | 24 | empty |
| 3 | 53 | 0.31 | 0.76 | 16 | empty |
| 4 | 56 | 0.27 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- H–L · 1690 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide, 1 modified (disulfide, cyclization).
Compared structures
- 2W9D · Structure of Fab fragment of the ICSM 18 - anti-Prp therapeutic antibody at 1.57 A… · 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 2W9D · PDBe 2W9D
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