Research workbench
Crystal structure of human YBX2 csd in complex with M5C RNA in space group P62
Analyse Crystal structure of human YBX2 csd in complex with M5C RNA in space group P62 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7F3L
- Type
- protein + RNA
- Length
- 79 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Y-box-binding protein 2; RNA (5'-R(P*CP*AP*UP*(5MC))-3')
- UniProt
- Q9Y2T7
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 57% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Y-box-binding protein 2 | protein | 75 | 4% helix, 57% strand | Q9Y2T7 |
| B | RNA (5'-R(P*CP*AP*UP*(5MC))-3') | rna | 4 | — | — |
Interfaces
1 interface between chains.
- A–B · 565 Ų buried · 11 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 7F3L · Crystal structure of human YBX2 CSD in complex with m5C RNA in space group P62 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y2T7 · AlphaFold monomer V2.0 prediction for Y-box-binding protein 2 (Q9Y2T7) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 Q9Y2T7
- Elsewhere: RCSB PDB 7F3L · PDBe 7F3L · UniProt Q9Y2T7
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