Research workbench
Bart-like domain of BARTL1/CCDC104 AA1-133 in complex with ARL3FL bound to gppnhp in P1 21 1
Analyse Bart-like domain of BARTL1/CCDC104 AA1-133 in complex with ARL3FL bound to… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ZI3
- Type
- protein
- Length
- 601 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ADP-ribosylation factor-like protein 3; Cilia- and flagella-associated protein 36
- UniProt
- Q9WUL7, Q8C6E0
- Ligands
- GNP, MG
- Pockets
- 8 · best druggability 0.82
Structure
x-ray diffraction · 4 distinct chains · 55% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ADP-ribosylation factor-like protein 3 | protein | 180 | 37% helix, 23% strand | Q9WUL7 |
| B | ADP-ribosylation factor-like protein 3 | protein | 170 | 32% helix, 24% strand | Q9WUL7 |
| C | Cilia- and flagella-associated protein 36 | protein | 123 | 85% helix, 1% strand | Q8C6E0 |
| D | Cilia- and flagella-associated protein 36 | protein | 128 | 84% helix, 1% strand | Q8C6E0 |
Ligands and binding sites
- GNP · Phosphoaminophosphonic acid-guanylate ester · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1060 | 0.82 | 0.83 | 98 | empty |
| 2 | 289 | 0.65 | 0.82 | 36 | empty |
| 3 | 249 | 0.63 | 0.81 | 28 | empty |
| 4 | 258 | 0.58 | 0.78 | 25 | empty |
| 5 | 118 | 0.44 | 0.78 | 24 | GNP, MG |
Interfaces
5 interfaces between chains.
- A–C · 1288 Ų buried · 14 hydrogen bonds · protein-protein
- B–D · 1204 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 912 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 122 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 80 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4ZI3 · BART-like domain of BARTL1/CCDC104 aa1-133 in complex with Arl3FL bound to GppNHp in P1… · the same entry in another collection · chain D against D, TM-score 1.00
- Q8C6E0 · AlphaFold monomer V2.0 prediction for cilia- and flagella-associated protein 36 (Q8C6E0) · a predicted model of the same protein · chain C against A, TM-score 0.98
- Q9WUL7 · AlphaFold monomer V2.0 prediction for ADP-ribosylation factor-like protein 3 (Q9WUL7) · a predicted model of the same protein · chain B against A, TM-score 0.91
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 Q9WUL7
- Every structure of UniProt Q8C6E0
- Elsewhere: RCSB PDB 4ZI3 · PDBe 4ZI3 · UniProt Q9WUL7 · UniProt Q8C6E0
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