Research workbench
Structure of the sodium proton antiporter panhap from pyrococcus abyssii at pH 4.
Analyse Structure of the sodium proton antiporter panhap from pyrococcus abyssii at pH… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4CZ9
- Type
- protein
- Length
- 839 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NA+/H+ antiporter, putative
- UniProt
- Q9UZ55
- Ligands
- OOC
- Pockets
- 12 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 81% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | NA+/H+ antiporter, putative | protein | 419 | 82% helix, 0% strand | Q9UZ55 |
| B | NA+/H+ antiporter, putative | protein | 420 | 80% helix, 0% strand | Q9UZ55 |
Ligands and binding sites
- OOC · octyl 4-O-beta-D-allopyranosyl-1-thio-beta-D-altropyranoside · ligand · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 809 | 0.85 | 0.87 | 52 | empty |
| 2 | 281 | 0.70 | 0.84 | 31 | empty |
| 3 | 544 | 0.69 | 0.79 | 38 | empty |
| 4 | 564 | 0.66 | 0.76 | 48 | empty |
| 5 | 413 | 0.64 | 0.78 | 39 | empty |
Interfaces
1 interface between chains.
- A–B · 2024 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 4CZ9 · Structure of the sodium proton antiporter PaNhaP from Pyrococcus abyssii at pH 4. · 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 Q9UZ55
- Elsewhere: RCSB PDB 4CZ9 · PDBe 4CZ9 · UniProt Q9UZ55
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