Research workbench
Complex of GGA3-vhs domain and ci-mpr C-terminal phosphopeptide
Analyse Complex of GGA3-vhs domain and ci-mpr C-terminal phosphopeptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1LF8
- Type
- protein
- Length
- 650 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ADP-ribosylation factor binding protein GGA3; Cation-independent mannose-6-phosphate…
- UniProt
- Q9NZ52, P11717
- Pockets
- 5 · best druggability 0.78
Structure
x-ray diffraction · 4 distinct chains · 68% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ADP-ribosylation factor binding protein GGA3 | protein | 151 | 68% helix, 1% strand | Q9NZ52 |
| B, D | ADP-ribosylation factor binding protein GGA3 | protein | 159 | 70% helix, 1% strand | Q9NZ52 |
| C | ADP-ribosylation factor binding protein GGA3 | protein | 149 | 68% helix, 0% strand | Q9NZ52 |
| E, F, G, H | Cation-independent mannose-6-phosphate receptor | protein | 8 | 0% helix, 0% strand | P11717 |
Pockets
5 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1093 | 0.78 | 0.79 | 74 | empty |
| 2 | 1037 | 0.76 | 0.79 | 78 | empty |
| 3 | 227 | 0.67 | 0.84 | 20 | empty |
| 4 | 127 | 0.59 | 0.85 | 22 | empty |
| 5 | 151 | 0.50 | 0.78 | 16 | empty |
Interfaces
9 interfaces between chains.
- A–D · 802 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 800 Ų buried · 12 hydrogen bonds · protein-protein
- B–F · 603 Ų buried · 8 hydrogen bonds · protein-protein
- A–E · 598 Ų buried · 10 hydrogen bonds · protein-protein
- C–G · 596 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (phosphorylation).
Compared structures
- 1LF8 · Complex of GGA3-VHS Domain and CI-MPR C-terminal Phosphopeptide · the same entry in another collection · chain H against H, TM-score 1.00
- Q9NZ52 · AlphaFold monomer V2.0 prediction for ADP-ribosylation factor-binding protein GGA3… · 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 Q9NZ52
- Every structure of UniProt P11717
- Elsewhere: RCSB PDB 1LF8 · PDBe 1LF8 · UniProt Q9NZ52 · UniProt P11717
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.