MolNFT v1 · #158055 · protein
Crystal structure of a human anti-zikv-denv neutralizing antibody MZ1 in complex with zikv E glycoprotein
6NIP · MZ1 heavy chain: “Crystal structure of a human anti-zikv-denv neutralizing antibody MZ1 in complex with zikv E glycoprotein”. X-ray diffraction, 20 pockets (best druggability 0.75). MolNFT v1 #158055 on GenesisL1: 3D structure…
- PDB
- 6NIP
- Type
- protein
- Length
- 1,668 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MZ1 heavy chain; MZ1 light chain; Envelope protein E
- UniProt
- A0A024B7W1
- Pockets
- 20 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, H | MZ1 heavy chain | protein | 221 | 6% helix, 51% strand | — |
| B, L | MZ1 light chain | protein | 214 | 6% helix, 49% strand | — |
| Z, E | Envelope protein E | protein | 399 | 6% helix, 50% strand | A0A024B7W1 |
Pockets
20 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 986 | 0.75 | 0.78 | 105 | empty |
| 2 | 929 | 0.73 | 0.77 | 70 | empty |
| 3 | 803 | 0.71 | 0.77 | 56 | empty |
| 4 | 494 | 0.68 | 0.79 | 62 | empty |
| 5 | 565 | 0.67 | 0.77 | 51 | empty |
Interfaces
7 interfaces between chains.
- A–B · 1998 Ų buried · 14 hydrogen bonds · protein-protein
- H–L · 1990 Ų buried · 18 hydrogen bonds · protein-protein
- Z–E · 1426 Ų buried · 9 hydrogen bonds · protein-protein
- Z–L · 505 Ų buried · 8 hydrogen bonds · protein-protein
- B–E · 473 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 20 disulfide (disulfide).
Compared structures
- 6NIP · Crystal structure of a human anti-ZIKV-DENV neutralizing antibody MZ1 in complex with… · 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 A0A024B7W1
- Elsewhere: RCSB PDB 6NIP · PDBe 6NIP · UniProt A0A024B7W1
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