MolNFT v1 · #7877 · protein
The X-ray structure of the sorcin calcium binding domain (scbd) provides insight into the phosphorylation and calcium dependent processess
1GJY: “The X-ray structure of the sorcin calcium binding domain (scbd) provides insight into the phosphorylation and…”. X-ray diffraction, 1 ligand (SO4), 7 pockets (best druggability 0.72). MolNFT v1 #7877 on GenesisL1: 3D structure…
- PDB
- 1GJY
- Type
- protein
- Length
- 668 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sorcin
- UniProt
- P05044
- Ligands
- SO4
- Pockets
- 7 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 59% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Sorcin | protein | 167 | 59% helix, 8% strand | P05044 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 5 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 327 | 0.72 | 0.85 | 30 | empty |
| 2 | 288 | 0.62 | 0.80 | 41 | empty |
| 3 | 180 | 0.61 | 0.83 | 30 | SO4 |
| 4 | 271 | 0.61 | 0.80 | 29 | SO4 |
| 5 | 266 | 0.57 | 0.78 | 32 | SO4 |
Interfaces
3 interfaces between chains.
- C–D · 1939 Ų buried · 42 hydrogen bonds · protein-protein
- A–B · 1933 Ų buried · 28 hydrogen bonds · protein-protein
- B–D · 560 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 1GJY · The X-ray structure of the Sorcin Calcium Binding Domain (SCBD) provides insight into the… · the same entry in another collection · chain A against A, TM-score 1.00
- P05044 · AlphaFold monomer V2.0 prediction for sorcin (P05044) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P05044
- Elsewhere: RCSB PDB 1GJY · PDBe 1GJY · UniProt P05044
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