MolNFT v1 · #147935 · protein
A cryptic RNA-binding domain mediates syncrip recognition and exosomal partitioning of miRNA targets
6ES4 · Syncrip, isoform K: “A cryptic RNA-binding domain mediates syncrip recognition and exosomal partitioning of miRNA targets”. X-ray diffraction, 1 ligand (SO4), 4 pockets (best druggability 0.63). MolNFT v1 #147935 on GenesisL1: 3D…
- PDB
- 6ES4
- Type
- protein
- Length
- 412 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Syncrip, isoform K
- UniProt
- A0A0B4KHH8
- Ligands
- SO4
- Pockets
- 4 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 42% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Syncrip, isoform K | protein | 207 | 41% helix, 19% strand | A0A0B4KHH8 |
| B | Syncrip, isoform K | protein | 205 | 42% helix, 20% strand | A0A0B4KHH8 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 7 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 80 | 0.63 | 0.90 | 22 | EDO |
| 2 | 189 | 0.61 | 0.82 | 29 | EDO |
| 3 | 87 | 0.54 | 0.85 | 22 | empty |
| 4 | 92 | 0.49 | 0.82 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 739 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (artifact).
Compared structures
- 6ES4 · A cryptic RNA-binding domain mediates Syncrip recognition and exosomal partitioning of… · the same entry in another collection · chain A against A, 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 A0A0B4KHH8
- Elsewhere: RCSB PDB 6ES4 · PDBe 6ES4 · UniProt A0A0B4KHH8
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