Research workbench
Crystal structure of chimeric H.2140 / K.1210 Fab in complex with circumsporozoite protein NANP3
Analyse Crystal structure of chimeric H.2140 / K.1210 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
- 6D0X
- Type
- protein
- Length
- 446 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 2140 antibody, heavy chain; 1210 antibody, light chain; NANP3
- Pockets
- 5 · best druggability 0.53
Structure
x-ray diffraction · 3 distinct chains · 7% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 2140 antibody, heavy chain | protein | 224 | 8% helix, 50% strand | — |
| B | 1210 antibody, light chain | protein | 211 | 5% helix, 51% strand | — |
| C | NANP3 | protein | 11 | 0% helix, 0% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 59 | 0.53 | 0.88 | 25 | empty |
| 2 | 264 | 0.53 | 0.76 | 33 | GOL |
| 3 | 149 | 0.41 | 0.74 | 18 | empty |
| 4 | 92 | 0.37 | 0.75 | 23 | empty |
| 5 | 57 | 0.27 | 0.73 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1803 Ų buried · 17 hydrogen bonds · protein-protein
- A–C · 482 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 153 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6D0X · Crystal structure of chimeric H.2140 / K.1210 Fab in complex with circumsporozoite… · 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 6D0X · PDBe 6D0X
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.