MolNFT v1 · #64421 · protein
Vhs domain of human GGA1 complexed with sorla C-terminal peptide
3G2S · ADP-ribosylation factor-binding protein GGA1: “Vhs domain of human GGA1 complexed with sorla C-terminal peptide”. X-ray diffraction, 2 pockets (best druggability 0.75). MolNFT v1 #64421 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3G2S
- Type
- protein
- Length
- 309 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ADP-ribosylation factor-binding protein GGA1; C-terminal fragment of sortilin-related…
- UniProt
- Q9UJY5, Q92673
- Pockets
- 2 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 67% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ADP-ribosylation factor-binding protein GGA1 | protein | 146 | 69% helix, 0% strand | Q9UJY5 |
| B | ADP-ribosylation factor-binding protein GGA1 | protein | 141 | 70% helix, 0% strand | Q9UJY5 |
| C, D | C-terminal fragment of sortilin-related receptor | protein | 11 | 0% helix, 0% strand | Q92673 |
Ligands and binding sites
- HEZ · Hexane-1,6-diol · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 471 | 0.75 | 0.84 | 69 | empty |
| 2 | 153 | 0.49 | 0.78 | 26 | HEZ |
Interfaces
3 interfaces between chains.
- A–B · 747 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 577 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 569 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3G2S · VHS Domain of human GGA1 complexed with SorLA C-terminal Peptide · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UJY5 · AlphaFold monomer V2.0 prediction for ADP-ribosylation factor-binding protein GGA1… · a predicted model of the same protein · chain B against A, TM-score 0.98
- Q92673 · AlphaFold monomer V2.0 prediction for sortilin-related receptor (Q92673) · a predicted model of the same protein · chain C against A, TM-score 0.44
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 Q9UJY5
- Every structure of UniProt Q92673
- Elsewhere: RCSB PDB 3G2S · PDBe 3G2S · UniProt Q9UJY5 · UniProt Q92673
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