MolNFT v1 · #14893 · protein
Unliganded bactericidal antibody against neisseria meningitidis
1MNU · Protein (IGG2A-kappa antibody MN12H2 (light chain)): “Unliganded bactericidal antibody against neisseria meningitidis”. X-ray diffraction, 1 ligand (CD), 7 pockets (best druggability 0.53). MolNFT v1 #14893 on GenesisL1: 3D…
- PDB
- 1MNU
- Type
- protein
- Length
- 440 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (IGG2A-kappa antibody MN12H2 (light chain)); Protein (IGG2A-kappa antibody MN12H2…
- Ligands
- CD
- Pockets
- 7 · best druggability 0.53
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | Protein (IGG2A-kappa antibody MN12H2 (light chain)) | protein | 219 | 7% helix, 52% strand | — |
| H | Protein (IGG2A-kappa antibody MN12H2 (heavy chain)) | protein | 221 | 7% helix, 52% strand | — |
Ligands and binding sites
- CD · Cadmium ion · metal · 3 copies · chains L, H
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 339 | 0.53 | 0.74 | 49 | empty |
| 2 | 160 | 0.51 | 0.78 | 23 | empty |
| 3 | 118 | 0.42 | 0.76 | 23 | empty |
| 4 | 67 | 0.35 | 0.77 | 15 | empty |
| 5 | 57 | 0.31 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- L–H · 1842 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 1MNU · Unliganded bactericidal antibody against neisseria meningitidis · 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 1MNU · PDBe 1MNU
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