Research workbench
Crystal structure of danio rerio SLIP1 in complex with slbp
Analyse Crystal structure of danio rerio SLIP1 in complex with slbp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4JHK
- Type
- protein
- Length
- 234 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MIF4G domain-containing protein B; SB:CB157 protein
- UniProt
- Q5EAQ1, Q7SXI8
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.32
Structure
x-ray diffraction · 2 distinct chains · 75% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MIF4G domain-containing protein B | protein | 212 | 77% helix, 2% strand | Q5EAQ1 |
| C | SB:CB157 protein | protein | 22 | 50% helix, 0% strand | Q7SXI8 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 50 | 0.32 | 0.78 | 12 | empty |
Interfaces
1 interface between chains.
- A–C · 672 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 4JHK · Crystal structure of Danio rerio SLIP1 in complex with SLBP · the same entry in another collection · chain A against A, TM-score 1.00
- Q5EAQ1 · AlphaFold monomer V2.0 prediction for MIF4G domain-containing protein B (Q5EAQ1) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q5EAQ1
- Every structure of UniProt Q7SXI8
- Elsewhere: RCSB PDB 4JHK · PDBe 4JHK · UniProt Q5EAQ1 · UniProt Q7SXI8
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