MolNFT v1 · #19900 · protein
The structure of the pii protein from the cyanobacteria synechococcus sp. pcc 7942
1QY7 · Nitrogen regulatory protein P-II: “The structure of the pii protein from the cyanobacteria synechococcus sp. pcc 7942”. X-ray diffraction, 2 ligands (NI, SO4), 5 pockets (best druggability 0.71). MolNFT v1 #19900 on GenesisL1: 3D…
- PDB
- 1QY7
- Type
- protein
- Length
- 336 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nitrogen regulatory protein P-II
- UniProt
- P0A3F4
- Ligands
- NI, SO4
- Pockets
- 5 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 25% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Nitrogen regulatory protein P-II | protein | 112 | 25% helix, 42% strand | P0A3F4 |
Ligands and binding sites
- NI · Nickel (II) ion · metal · 3 copies · chains A, B, C
- SO4 · Sulfate ion · ion · 6 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 57 | 0.71 | 0.98 | 30 | empty |
| 2 | 387 | 0.63 | 0.78 | 42 | SO4 |
| 3 | 341 | 0.62 | 0.78 | 42 | SO4 |
| 4 | 326 | 0.62 | 0.79 | 43 | SO4 |
| 5 | 131 | 0.48 | 0.79 | 30 | empty |
Interfaces
3 interfaces between chains.
- A–C · 1131 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 1130 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 1129 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 1QY7 · The structure of the PII protein from the cyanobacteria Synechococcus sp. PCC 7942 · the same entry in another collection · chain A against A, TM-score 1.00
- P0A3F4 · AlphaFold monomer V2.0 prediction for nitrogen regulatory protein P-II (P0A3F4) · a predicted model of the same protein · chain A against A, TM-score 0.81
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 P0A3F4
- Elsewhere: RCSB PDB 1QY7 · PDBe 1QY7 · UniProt P0A3F4
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