Research workbench
Crystal structure of an immunogen specific anti- mannopyranoside monoclonal antibody Fab fragment
Analyse Crystal structure of an immunogen specific anti- mannopyranoside monoclonal… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2V7H
- Type
- protein
- Length
- 864 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Monoclonal antibody
- Pockets
- 12 · best druggability 0.52
Structure
x-ray diffraction · 3 distinct chains · 4% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, L | Monoclonal antibody | protein | 214 | 4% helix, 48% strand | — |
| B | Monoclonal antibody | protein | 216 | 1% helix, 49% strand | — |
| H | Monoclonal antibody | protein | 220 | 7% helix, 50% strand | — |
Pockets
12 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 358 | 0.52 | 0.73 | 52 | empty |
| 2 | 93 | 0.49 | 0.82 | 23 | empty |
| 3 | 191 | 0.48 | 0.76 | 26 | empty |
| 4 | 195 | 0.47 | 0.75 | 27 | empty |
| 5 | 178 | 0.42 | 0.73 | 41 | empty |
Interfaces
3 interfaces between chains.
- L–H · 2034 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 1945 Ų buried · 16 hydrogen bonds · protein-protein
- B–H · 649 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 2V7H · Crystal structure of an immunogen specific anti-mannopyranoside monoclonal antibody Fab… · 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 2V7H · PDBe 2V7H
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