MolNFT v1 · #11769 · protein
Vhs domain of human GGA1 complexed with cation-independent M6PR C-terminal peptide
1JWG · ADP-ribosylation factor binding protein GGA1: “Vhs domain of human GGA1 complexed with cation-independent M6PR C-terminal peptide”. X-ray diffraction, 1 ligand (IOD), 2 pockets (best druggability 0.58). MolNFT v1 #11769 on…
- PDB
- 1JWG
- Type
- protein
- Length
- 292 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ADP-ribosylation factor binding protein GGA1; Cation-independent mannose-6-phosphate…
- UniProt
- Q9UJY5, P11717
- Ligands
- IOD
- Pockets
- 2 · best druggability 0.58
Structure
x-ray diffraction · 3 distinct chains · 64% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | ADP-ribosylation factor binding protein GGA1 | protein | 140 | 69% helix, 0% strand | Q9UJY5 |
| C | Cation-independent mannose-6-phosphate receptor | protein | 7 | 0% helix, 0% strand | P11717 |
| D | Cation-independent mannose-6-phosphate receptor | protein | 5 | 0% helix, 0% strand | P11717 |
Ligands and binding sites
- IOD · Iodide ion · ion · 6 copies · 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 | 118 | 0.58 | 0.84 | 23 | IOD |
| 2 | 114 | 0.39 | 0.75 | 23 | empty |
Interfaces
3 interfaces between chains.
- A–C · 564 Ų buried · 9 hydrogen bonds · protein-protein
- B–D · 464 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 438 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 1JWG · VHS Domain of human GGA1 complexed with cation-independent M6PR C-terminal Peptide · the same entry in another collection · chain D against D, 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 A against A, TM-score 0.98
- P11717 · AlphaFold monomer V2.0 prediction for cation-independent mannose-6-phosphate receptor… · a predicted model of the same protein · chain D against A, TM-score 0.89
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 P11717
- Elsewhere: RCSB PDB 1JWG · PDBe 1JWG · UniProt Q9UJY5 · UniProt P11717
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.