Research workbench
Crystal structure of tier 2 neutralizing antibody DH427 from a rhesus macaque
Analyse Crystal structure of tier 2 neutralizing antibody DH427 from a rhesus macaque in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5F6H
- Type
- protein
- Length
- 1,688 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DH427 antibody light chain; DH427 antibody heavy chain
- Pockets
- 16 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 5% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L, J, N, P | DH427 antibody light chain | protein | 212 | 7% helix, 50% strand | — |
| K, I, M, O | DH427 antibody heavy chain | protein | 210 | 4% helix, 50% strand | — |
Pockets
16 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 605 | 0.67 | 0.77 | 61 | empty |
| 2 | 532 | 0.66 | 0.77 | 74 | empty |
| 3 | 470 | 0.58 | 0.74 | 57 | empty |
| 4 | 448 | 0.58 | 0.74 | 55 | empty |
| 5 | 236 | 0.52 | 0.76 | 36 | empty |
Interfaces
10 interfaces between chains.
- N–M · 1622 Ų buried · 11 hydrogen bonds · protein-protein
- J–I · 1604 Ų buried · 13 hydrogen bonds · protein-protein
- P–O · 1568 Ų buried · 9 hydrogen bonds · protein-protein
- L–K · 1560 Ų buried · 12 hydrogen bonds · protein-protein
- K–I · 589 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 5F6H · Crystal Structure of Tier 2 Neutralizing Antibody DH427 from a Rhesus Macaque · the same entry in another collection · chain L against L, 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 5F6H · PDBe 5F6H
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