MolNFT v1 · #129198 · protein
Crystal structure of the ra-associated mab B2 (Fab fragment)
5OD8 · B2 Fab fragment - heavy chain: “Crystal structure of the ra-associated mab B2 (Fab fragment)”. X-ray diffraction, 1 pocket (best druggability 0.54). MolNFT v1 #129198 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5OD8
- Type
- protein
- Length
- 443 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- B2 Fab fragment - heavy chain; B2 Fab fragment - light chain
- Pockets
- 1 · best druggability 0.54
Structure
x-ray diffraction · 2 distinct chains · 8% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | B2 Fab fragment - heavy chain | protein | 230 | 11% helix, 50% strand | — |
| B | B2 Fab fragment - light chain | protein | 213 | 6% helix, 51% strand | — |
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 347 | 0.54 | 0.74 | 49 | empty |
Interfaces
1 interface between chains.
- A–B · 2104 Ų buried · 18 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5OD8 · Crystal structure of the RA-associated mAb B2 (Fab fragment) · 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
- Elsewhere: RCSB PDB 5OD8 · PDBe 5OD8
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