Research workbench
Crystal structure of the KH1 domain of human RNA-binding E3 ubiquitin- protein ligase mex-3C complex with RNA
Analyse Crystal structure of the KH1 domain of human RNA-binding E3 ubiquitin- protein… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5WWW
- Type
- protein + RNA
- Length
- 100 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-binding E3 ubiquitin-protein ligase MEX3C; RNA (5'-R(*GP*UP*UP*UP*AP*G)-3')
- EC
- 2.3.2.27
- UniProt
- Q5U5Q3
- Pockets
- 1 · best druggability 0.27
Structure
x-ray diffraction · 2 distinct chains · 60% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA-binding E3 ubiquitin-protein ligase MEX3C (EC 2.3.2.27) | protein | 94 | 60% helix, 16% strand | Q5U5Q3 |
| B | RNA (5'-R(*GP*UP*UP*UP*AP*G)-3') | rna | 6 | — | — |
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 | 61 | 0.27 | 0.73 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 765 Ų buried · 23 hydrogen bonds · protein-nucleic
Compared structures
- 5WWW · Crystal structure of the KH1 domain of human RNA-binding E3 ubiquitin-protein ligase… · the same entry in another collection · chain A against A, TM-score 1.00
- Q5U5Q3 · AlphaFold monomer V2.0 prediction for RNA-binding E3 ubiquitin- protein ligase MEX3C… · a predicted model of the same protein · chain A against A, TM-score 0.84
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 Q5U5Q3
- Elsewhere: RCSB PDB 5WWW · PDBe 5WWW · UniProt Q5U5Q3
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