Research workbench
Crystal structure of antibody 93F3 unstable variant
Analyse Crystal structure of antibody 93F3 unstable variant in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4J1U
- Type
- protein
- Length
- 1,262 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Antibody 93F3 light chain; Antibody 93F3 heavy chain
- Pockets
- 17 · best druggability 0.74
Structure
x-ray diffraction · 6 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Antibody 93F3 light chain | protein | 210 | 6% helix, 52% strand | — |
| B | Antibody 93F3 heavy chain | protein | 208 | 8% helix, 50% strand | — |
| C | Antibody 93F3 light chain | protein | 213 | 4% helix, 50% strand | — |
| D | Antibody 93F3 heavy chain | protein | 210 | 6% helix, 45% strand | — |
| E | Antibody 93F3 light chain | protein | 214 | 6% helix, 52% strand | — |
| F | Antibody 93F3 heavy chain | protein | 207 | 8% helix, 52% strand | — |
Pockets
17 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 612 | 0.74 | 0.81 | 60 | empty |
| 2 | 639 | 0.68 | 0.77 | 62 | empty |
| 3 | 562 | 0.61 | 0.74 | 57 | empty |
| 4 | 360 | 0.61 | 0.77 | 33 | empty |
| 5 | 247 | 0.59 | 0.80 | 35 | empty |
Interfaces
9 interfaces between chains.
- C–D · 1648 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 1595 Ų buried · 15 hydrogen bonds · protein-protein
- E–F · 1464 Ų buried · 12 hydrogen bonds · protein-protein
- C–F · 637 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 508 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 4J1U · Crystal structure of antibody 93F3 unstable variant · 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 4J1U · PDBe 4J1U
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