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Structure of heterotrimeric lymphotoxin LTA1B2 bound to lymphotoxin beta receptor ltbr and anti-lta Fab
Analyse Structure of heterotrimeric lymphotoxin LTA1B2 bound to lymphotoxin beta… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4MXW
- Type
- protein
- Length
- 1,868 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tumor necrosis factor receptor superfamily member 3; Anti-lymphotoxin alpha antibody…
- UniProt
- P36941, P01374, Q06643
- Pockets
- 20 · best druggability 0.79
Structure
x-ray diffraction · 10 distinct chains · 3% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| S | Tumor necrosis factor receptor superfamily member 3 | protein | 79 | 0% helix, 27% strand | P36941 |
| V, L | Anti-lymphotoxin alpha antibody light chain | protein | 211 | 5% helix, 49% strand | — |
| W | Anti-lymphotoxin alpha antibody heavy chain | protein | 212 | 4% helix, 50% strand | — |
| X, A | Lymphotoxin-alpha | protein | 134 | 2% helix, 53% strand | P01374 |
| Y | Lymphotoxin-beta | protein | 131 | 2% helix, 58% strand | Q06643 |
| Z | Lymphotoxin-beta | protein | 134 | 2% helix, 57% strand | Q06643 |
| B | Lymphotoxin-beta | protein | 126 | 2% helix, 56% strand | Q06643 |
| D | Lymphotoxin-beta | protein | 135 | 2% helix, 56% strand | Q06643 |
| H | Anti-lymphotoxin alpha antibody heavy chain | protein | 212 | 6% helix, 46% strand | — |
| R | Tumor necrosis factor receptor superfamily member 3 | protein | 149 | 0% helix, 21% strand | P36941 |
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 130 | 0.79 | 0.97 | 36 | empty |
| 2 | 125 | 0.78 | 0.96 | 33 | empty |
| 3 | 615 | 0.69 | 0.78 | 43 | empty |
| 4 | 480 | 0.69 | 0.79 | 52 | empty |
| 5 | 405 | 0.66 | 0.79 | 43 | empty |
Interfaces
18 interfaces between chains.
- V–W · 1794 Ų buried · 6 hydrogen bonds · protein-protein
- H–L · 1770 Ų buried · 5 hydrogen bonds · protein-protein
- X–Z · 1015 Ų buried · 7 hydrogen bonds · protein-protein
- X–Y · 972 Ų buried · 20 hydrogen bonds · protein-protein
- A–D · 959 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 25 disulfide (disulfide).
Compared structures
- 4MXW · Structure of heterotrimeric lymphotoxin LTa1b2 bound to lymphotoxin beta receptor LTbR… · the same entry in another collection · chain H against H, 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 P36941
- Every structure of UniProt P01374
- Every structure of UniProt Q06643
- Elsewhere: RCSB PDB 4MXW · PDBe 4MXW · UniProt P36941 · UniProt P01374 · UniProt Q06643
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