Research workbench
Structural model of tandem rrm domains of cytoplasmic polyadenylation element binding protein 1 (CPEB1) in complex with RNA
Analyse Structural model of tandem rrm domains of cytoplasmic polyadenylation element… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2MKK
- Type
- protein + RNA
- Length
- 218 residues
- Chains
- 2
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytoplasmic polyadenylation element-binding protein 1; RNA (5'-R(*UP*UP*UP*UP*A)-3')
- UniProt
- Q9BZB8
- Pockets
- 3 · best druggability 0.61
Structure
solution nmr · 2 distinct chains · 18% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cytoplasmic polyadenylation element-binding protein 1 | protein | 213 | 18% helix, 24% strand | Q9BZB8 |
| B | RNA (5'-R(*UP*UP*UP*UP*A)-3') | rna | 5 | — | — |
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 161 | 0.61 | 0.84 | 29 | empty |
| 2 | 270 | 0.54 | 0.76 | 38 | empty |
| 3 | 68 | 0.39 | 0.79 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 965 Ų buried · 23 hydrogen bonds · protein-nucleic
Compared structures
- 2MKK · Structural model of tandem RRM domains of cytoplasmic polyadenylation element binding… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9BZB8 · AlphaFold monomer V2.0 prediction for cytoplasmic polyadenylation element-binding protein… · a predicted model of the same protein · chain A against A, TM-score 0.70
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 Q9BZB8
- Elsewhere: RCSB PDB 2MKK · PDBe 2MKK · UniProt Q9BZB8
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