Research workbench
Crystal structure of the E. COLI histidine kinase narx sensor domain without ligand
Analyse Crystal structure of the E. COLI histidine kinase narx sensor domain without… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3EZI
- Type
- protein
- Length
- 406 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NITRATE/NITRITE sensor protein narx
- EC
- 2.7.13.3
- UniProt
- P0AFA2
- Pockets
- 4 · best druggability 0.66
Structure
x-ray diffraction · 4 distinct chains · 81% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | NITRATE/NITRITE sensor protein narx (EC 2.7.13.3) | protein | 104 | 80% helix, 0% strand | P0AFA2 |
| B | NITRATE/NITRITE sensor protein narx (EC 2.7.13.3) | protein | 99 | 82% helix, 0% strand | P0AFA2 |
| C | NITRATE/NITRITE sensor protein narx (EC 2.7.13.3) | protein | 103 | 79% helix, 0% strand | P0AFA2 |
| D | NITRATE/NITRITE sensor protein narx (EC 2.7.13.3) | protein | 100 | 82% helix, 0% strand | P0AFA2 |
Ligands and binding sites
- IPA · Isopropyl alcohol · additive · 2 copies · chains A, C
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 | 230 | 0.66 | 0.83 | 24 | empty |
| 2 | 244 | 0.64 | 0.82 | 24 | empty |
| 3 | 126 | 0.40 | 0.75 | 23 | empty |
| 4 | 80 | 0.35 | 0.76 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–B · 462 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 458 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 318 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 3EZI · Crystal Structure of the E. coli Histidine Kinase NarX Sensor Domain without Ligand · the same entry in another collection · chain D against D, TM-score 1.00
- P0AFA2 · AlphaFold monomer V2.0 prediction for NITRATE/NITRITE sensor protein narx (P0AFA2) · 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 P0AFA2
- Elsewhere: RCSB PDB 3EZI · PDBe 3EZI · UniProt P0AFA2
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.