Research workbench
Crystal structure of human frequenin (neuronal calcium sensor 1)
Analyse Crystal structure of human frequenin (neuronal calcium sensor 1) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1G8I
- Type
- protein
- Length
- 368 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Neuronal calcium sensor 1
- UniProt
- P62166
- Ligands
- CA, NA
- Pockets
- 5 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 63% helix, 6% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Neuronal calcium sensor 1 | protein | 182 | 64% helix, 8% strand | P62166 |
| B | Neuronal calcium sensor 1 | protein | 186 | 63% helix, 4% strand | P62166 |
Ligands and binding sites
- CA · Calcium ion · metal · 6 copies · chains A, B
- NA · Sodium ion · metal · 2 copies · chains A, B
- 1PE · Pentaethylene glycol · additive · 3 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 2 copies · chains A, B
- P6G · Hexaethylene glycol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 653 | 0.69 | 0.76 | 58 | 1PE |
| 2 | 465 | 0.64 | 0.76 | 38 | 1PE, P6G |
| 3 | 138 | 0.40 | 0.74 | 26 | empty |
| 4 | 68 | 0.33 | 0.75 | 15 | empty |
| 5 | 56 | 0.28 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 60 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 1G8I · Crystal structure of human frequenin (neuronal calcium sensor 1) · the same entry in another collection · chain A against A, TM-score 1.00
- P62166 · AlphaFold monomer V2.0 prediction for neuronal calcium sensor 1 (P62166) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P62166
- Elsewhere: RCSB PDB 1G8I · PDBe 1G8I · UniProt P62166
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