Research workbench
Crystal structure analysis of the germline antibody 36-65 Fab in complex with the dodecapeptide slgdnltnhnlr
Analyse Crystal structure analysis of the germline antibody 36-65 Fab in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2A6K
- Type
- protein
- Length
- 872 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Germline antibody 36-65 Fab light chain; Germline antibody 36-65 Fab heavy chain…
- UniProt
- Q6PF95
- Pockets
- 5 · best druggability 0.49
Structure
x-ray diffraction · 4 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, L | Germline antibody 36-65 Fab light chain | protein | 214 | 6% helix, 50% strand | — |
| B | Germline antibody 36-65 Fab heavy chain | protein | 218 | 6% helix, 52% strand | Q6PF95 |
| H | Germline antibody 36-65 Fab heavy chain | protein | 216 | 6% helix, 50% strand | Q6PF95 |
| P | Dodecapeptide: slgdnltnhnlr | protein | 10 | 0% helix, 0% strand | — |
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 231 | 0.49 | 0.74 | 36 | empty |
| 2 | 246 | 0.48 | 0.73 | 44 | empty |
| 3 | 73 | 0.30 | 0.73 | 18 | empty |
| 4 | 68 | 0.29 | 0.73 | 18 | empty |
| 5 | 68 | 0.26 | 0.72 | 13 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1968 Ų buried · 20 hydrogen bonds · protein-protein
- L–H · 1904 Ų buried · 13 hydrogen bonds · protein-protein
- H–P · 403 Ų buried · 11 hydrogen bonds · protein-protein
- L–P · 98 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 2A6K · Crystal Structure Analysis of the germline antibody 36-65 Fab in complex with the… · 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
- Every structure of UniProt Q6PF95
- Elsewhere: RCSB PDB 2A6K · PDBe 2A6K · UniProt Q6PF95
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.