Research workbench
Anti-marburgvirus nucleoprotein single domain antibody C
Analyse Anti-marburgvirus nucleoprotein single domain antibody C in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4W2P
- Type
- protein
- Length
- 482 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Anti-marburgvirus nucleoprotein single domain antibody C
- Ligands
- NA
- Pockets
- 7 · best druggability 0.71
Structure
x-ray diffraction · 4 distinct chains · 10% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Anti-marburgvirus nucleoprotein single domain antibody C | protein | 126 | 10% helix, 48% strand | — |
| B | Anti-marburgvirus nucleoprotein single domain antibody C | protein | 122 | 12% helix, 45% strand | — |
| C | Anti-marburgvirus nucleoprotein single domain antibody C | protein | 120 | 8% helix, 52% strand | — |
| D | Anti-marburgvirus nucleoprotein single domain antibody C | protein | 114 | 11% helix, 49% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 314 | 0.71 | 0.84 | 38 | empty |
| 2 | 184 | 0.59 | 0.82 | 37 | empty |
| 3 | 242 | 0.54 | 0.77 | 30 | empty |
| 4 | 248 | 0.51 | 0.75 | 21 | empty |
| 5 | 174 | 0.46 | 0.76 | 35 | empty |
Interfaces
4 interfaces between chains.
- C–D · 763 Ų buried · 12 hydrogen bonds · protein-protein
- A–D · 561 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 432 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 169 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4W2P · Anti-Marburgvirus Nucleoprotein Single Domain Antibody C · 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 4W2P · PDBe 4W2P
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