Research workbench
Structure of the lapb cytoplasmic domain at 2 ångströms
Analyse Structure of the lapb cytoplasmic domain at 2 ångströms in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ZLH
- Type
- protein
- Length
- 661 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lipopolysaccharide assembly protein B
- UniProt
- P0AB60
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 71% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lipopolysaccharide assembly protein B | protein | 323 | 71% helix, 3% strand | P0AB60 |
| B | Lipopolysaccharide assembly protein B | protein | 338 | 71% helix, 4% strand | P0AB60 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 274 | 0.65 | 0.82 | 33 | empty |
| 2 | 309 | 0.60 | 0.78 | 53 | empty |
| 3 | 56 | 0.39 | 0.81 | 12 | empty |
| 4 | 58 | 0.35 | 0.78 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1264 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 4ZLH · Structure of the LapB cytoplasmic domain at 2 angstroms · the same entry in another collection · chain A against A, TM-score 1.00
- P0AB60 · AlphaFold monomer V2.0 prediction for lipopolysaccharide assembly protein B (P0AB60) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P0AB60
- Elsewhere: RCSB PDB 4ZLH · PDBe 4ZLH · UniProt P0AB60
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