Research workbench
Anti HIV Fab 10A
Analyse Anti HIV Fab 10A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6CJK
- Type
- protein
- Length
- 855 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Immunoglobulin Fab light chain; Immunoglobulin Fab heavy chain
- Pockets
- 12 · best druggability 0.61
Structure
x-ray diffraction · 4 distinct chains · 5% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Immunoglobulin Fab light chain | protein | 216 | 6% helix, 53% strand | — |
| B | Immunoglobulin Fab heavy chain | protein | 209 | 4% helix, 54% strand | — |
| C | Immunoglobulin Fab light chain | protein | 217 | 7% helix, 53% strand | — |
| D | Immunoglobulin Fab heavy chain | protein | 213 | 4% helix, 54% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 550 | 0.61 | 0.74 | 59 | ACT |
| 2 | 423 | 0.60 | 0.75 | 48 | empty |
| 3 | 426 | 0.58 | 0.75 | 42 | empty |
| 4 | 60 | 0.55 | 0.88 | 19 | empty |
| 5 | 130 | 0.42 | 0.75 | 29 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1711 Ų buried · 19 hydrogen bonds · protein-protein
- C–D · 1684 Ų buried · 12 hydrogen bonds · protein-protein
- B–D · 501 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 14 disulfide, 2 modified (disulfide, cyclization).
Compared structures
- 6CJK · Anti HIV Fab 10A · 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 6CJK · PDBe 6CJK
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