Research workbench
Crystal structure of the ALBA1:ALBA2 heterodimer from sulfolobus solfataricus
Analyse Crystal structure of the ALBA1:ALBA2 heterodimer from sulfolobus solfataricus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2BKY
- Type
- protein
- Length
- 350 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA/RNA-binding protein alba 1; DNA/RNA-binding protein alba 2
- UniProt
- P60849, Q97ZF4
- Pockets
- 6 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | DNA/RNA-binding protein alba 1 | protein | 89 | 33% helix, 43% strand | P60849 |
| X, Y | DNA/RNA-binding protein alba 2 | protein | 86 | 37% helix, 42% strand | Q97ZF4 |
Ligands and binding sites
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 5 copies · chains A, B, Y, X
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 133 | 0.70 | 0.91 | 25 | empty |
| 2 | 132 | 0.50 | 0.80 | 26 | empty |
| 3 | 62 | 0.34 | 0.77 | 13 | MPD |
| 4 | 63 | 0.32 | 0.76 | 12 | MPD |
| 5 | 55 | 0.27 | 0.74 | 13 | MPD |
Interfaces
6 interfaces between chains.
- A–B · 870 Ų buried · 18 hydrogen bonds · protein-protein
- A–X · 747 Ų buried · 11 hydrogen bonds · protein-protein
- B–Y · 717 Ų buried · 15 hydrogen bonds · protein-protein
- X–Y · 247 Ų buried · 10 hydrogen bonds · protein-protein
- A–Y · 204 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 2BKY · Crystal structure of the Alba1:Alba2 heterodimer from sulfolobus solfataricus · the same entry in another collection · chain Y against Y, TM-score 1.00
- Q97ZF4 · AlphaFold monomer V2.0 prediction for DNA/RNA-binding protein alba 2 (Q97ZF4) · a predicted model of the same protein · chain X against A, TM-score 0.96
- P60849 · AlphaFold monomer V2.0 prediction for DNA/RNA-binding protein alba 1 (P60849) · a predicted model of the same protein · chain B against A, TM-score 0.93
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 P60849
- Every structure of UniProt Q97ZF4
- Elsewhere: RCSB PDB 2BKY · PDBe 2BKY · UniProt P60849 · UniProt Q97ZF4
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