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Co-crystal structure of human UNC119 (retina gene 4) and an N-terminal transducin-alpha mimicking peptide
Analyse Co-crystal structure of human UNC119 (retina gene 4) and an N-terminal… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3RBQ
- Type
- protein
- Length
- 1,025 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein unc-119 homolog a; Guanine nucleotide-binding protein G(T) subunit alpha-1
- UniProt
- Q13432, P11488
- Ligands
- DAO
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 6 distinct chains · 15% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Protein unc-119 homolog a | protein | 165 | 12% helix, 47% strand | Q13432 |
| G | Guanine nucleotide-binding protein G(T) subunit alpha-1 | protein | 7 | 0% helix, 0% strand | P11488 |
| H | Guanine nucleotide-binding protein G(T) subunit alpha-1 | protein | 8 | 50% helix, 0% strand | P11488 |
| I, J | Guanine nucleotide-binding protein G(T) subunit alpha-1 | protein | 4 | 0% helix, 0% strand | P11488 |
| K | Guanine nucleotide-binding protein G(T) subunit alpha-1 | protein | 3 | 0% helix, 0% strand | P11488 |
| L | Guanine nucleotide-binding protein G(T) subunit alpha-1 | protein | 9 | 56% helix, 0% strand | P11488 |
Ligands and binding sites
- DAO · Lauric acid · ligand · 6 copies · chains A, G, B, H, C, I, D, J, E, K, F, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 128 | 0.81 | 0.98 | 22 | DAO |
| 2 | 125 | 0.81 | 0.97 | 21 | DAO |
| 3 | 120 | 0.80 | 0.98 | 21 | DAO |
| 4 | 123 | 0.80 | 0.97 | 22 | DAO |
| 5 | 114 | 0.79 | 0.97 | 22 | DAO |
Interfaces
15 interfaces between chains.
- C–E · 626 Ų buried · 11 hydrogen bonds · protein-protein
- F–L · 621 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 568 Ų buried · 4 hydrogen bonds · protein-protein
- B–H · 547 Ų buried · 9 hydrogen bonds · protein-protein
- C–F · 534 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 covalent (covalent ligand).
Compared structures
- 3RBQ · Co-crystal structure of human UNC119 (retina gene 4) and an N-terminal Transducin-alpha… · the same entry in another collection · chain K against K, TM-score 1.00
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 Q13432
- Every structure of UniProt P11488
- Elsewhere: RCSB PDB 3RBQ · PDBe 3RBQ · UniProt Q13432 · UniProt P11488
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