Research workbench
Crystal structure of tRNA-dependent lantibiotic dehydratase nisb in complex with nisa leader peptide
Analyse Crystal structure of tRNA-dependent lantibiotic dehydratase nisb in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4WD9
- Type
- protein
- Length
- 1,927 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nisin biosynthesis protein nisb
- UniProt
- P20103
- Pockets
- 20 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nisin biosynthesis protein nisb | protein | 965 | 43% helix, 20% strand | P20103 |
| B | Nisin biosynthesis protein nisb | protein | 962 | 44% helix, 21% strand | P20103 |
Pockets
20 pockets found on a 1 Å grid, 19 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 922 | 0.82 | 0.84 | 111 | empty |
| 2 | 1047 | 0.80 | 0.81 | 107 | empty |
| 3 | 760 | 0.77 | 0.81 | 80 | empty |
| 4 | 482 | 0.75 | 0.83 | 52 | empty |
| 5 | 521 | 0.74 | 0.82 | 67 | empty |
Interfaces
1 interface between chains.
- A–B · 3286 Ų buried · 30 hydrogen bonds · protein-protein
Compared structures
- 4WD9 · Crystal structure of tRNA-dependent lantibiotic dehydratase NisB in complex with NisA… · the same entry in another collection · chain A against A, TM-score 1.00
- P20103 · AlphaFold monomer V2.0 prediction for nisin biosynthesis protein nisb (P20103) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 P20103
- Elsewhere: RCSB PDB 4WD9 · PDBe 4WD9 · UniProt P20103
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.