Research workbench
Crystal structure of a hyperactive mutant of response regulator kdpe complexed to its promoter DNA
Analyse Crystal structure of a hyperactive mutant of response regulator kdpe complexed… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4KFC
- Type
- protein + DNA
- Length
- 507 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Kdp operon transcriptional regulatory protein kdpe; Promoter DNA
- UniProt
- P21866
- Pockets
- 9 · best druggability 0.53
Structure
x-ray diffraction · 4 distinct chains · 41% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Kdp operon transcriptional regulatory protein kdpe | protein | 223 | 43% helix, 22% strand | P21866 |
| B | Kdp operon transcriptional regulatory protein kdpe | protein | 224 | 40% helix, 23% strand | P21866 |
| Y | Promoter DNA | dna | 30 | — | — |
| Z | Promoter DNA | dna | 30 | — | — |
Pockets
9 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 85 | 0.53 | 0.85 | 19 | empty |
| 2 | 255 | 0.49 | 0.74 | 37 | empty |
| 3 | 192 | 0.45 | 0.75 | 20 | empty |
| 4 | 129 | 0.45 | 0.77 | 21 | empty |
| 5 | 121 | 0.43 | 0.77 | 22 | empty |
Interfaces
6 interfaces between chains.
- Y–Z · 1368 Ų buried · 111 hydrogen bonds · nucleic-nucleic
- A–B · 1174 Ų buried · 31 hydrogen bonds · protein-protein
- A–Y · 427 Ų buried · 7 hydrogen bonds · protein-nucleic
- B–Z · 397 Ų buried · 3 hydrogen bonds · protein-nucleic
- A–Z · 382 Ų buried · 8 hydrogen bonds · protein-nucleic
Compared structures
- 4KFC · Crystal structure of a hyperactive mutant of response regulator KdpE complexed to its… · the same entry in another collection · chain A against A, TM-score 1.00
- P21866 · AlphaFold monomer V2.0 prediction for kdp operon transcriptional regulatory protein kdpe… · a predicted model of the same protein · chain A against A, TM-score 0.73
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 P21866
- Elsewhere: RCSB PDB 4KFC · PDBe 4KFC · UniProt P21866
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.