Research workbench
Cryoem structure of the human sodium proton exchanger NHA2
Analyse Cryoem structure of the human sodium proton exchanger NHA2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7B4L
- Type
- protein
- Length
- 886 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SODIUM/HYDROGEN exchanger 9B2
- UniProt
- Q86UD5
- Ligands
- C14, POV, NA
- Pockets
- 14 · best druggability 0.72
Structure
electron microscopy · 1 distinct chain · 76% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | SODIUM/HYDROGEN exchanger 9B2 | protein | 443 | 76% helix, 0% strand | Q86UD5 |
Ligands and binding sites
- C14 · Tetradecane · ligand · 6 copies · chains A, B
- POV · (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate · ligand · 4 copies · chains A, B
- NA · Sodium ion · metal · 2 copies · chains A, B
- UND · Undecane · additive · 10 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 405 | 0.72 | 0.83 | 55 | empty |
| 2 | 429 | 0.72 | 0.82 | 53 | empty |
| 3 | 286 | 0.51 | 0.73 | 41 | C14, UND |
| 4 | 127 | 0.48 | 0.79 | 24 | empty |
| 5 | 140 | 0.48 | 0.78 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 1634 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
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 Q86UD5
- Elsewhere: RCSB PDB 7B4L · PDBe 7B4L · UniProt Q86UD5
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