Research workbench
Crystal structure of the C-terminal part of rhie from burkholderia rhizoxinica
Analyse Crystal structure of the C-terminal part of rhie from burkholderia rhizoxinica in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4KC5
- Type
- protein
- Length
- 3,632 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rhie protein
- UniProt
- A1KQS1
- Pockets
- 20 · best druggability 0.87
Structure
x-ray diffraction · 4 distinct chains · 31% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Rhie protein | protein | 914 | 31% helix, 25% strand | A1KQS1 |
| B | Rhie protein | protein | 907 | 31% helix, 25% strand | A1KQS1 |
| C | Rhie protein | protein | 901 | 31% helix, 25% strand | A1KQS1 |
| D | Rhie protein | protein | 910 | 31% helix, 26% strand | A1KQS1 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 959 | 0.87 | 0.88 | 136 | empty |
| 2 | 1061 | 0.86 | 0.87 | 125 | empty |
| 3 | 1054 | 0.79 | 0.81 | 89 | empty |
| 4 | 979 | 0.78 | 0.80 | 94 | empty |
| 5 | 93 | 0.77 | 0.97 | 20 | empty |
Interfaces
5 interfaces between chains.
- A–B · 3285 Ų buried · 42 hydrogen bonds · protein-protein
- C–D · 3239 Ų buried · 40 hydrogen bonds · protein-protein
- A–D · 752 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 178 Ų buried · 1 hydrogen bond · protein-protein
- B–D · 35 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4KC5 · Crystal structure of the C-terminal part of RhiE from Burkholderia rhizoxinica · 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 A1KQS1
- Elsewhere: RCSB PDB 4KC5 · PDBe 4KC5 · UniProt A1KQS1
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.