Research workbench
Crystal structure of the cold shock domain of yb-1 in complex with M5C RNA
Analyse Crystal structure of the cold shock domain of yb-1 in complex with M5C RNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6A6L
- Type
- protein + RNA
- Length
- 80 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nuclease-sensitive element-binding protein 1; RNA (5'-R(P*CP*AP*UP*(5MC))-3')
- UniProt
- P67809
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nuclease-sensitive element-binding protein 1 | protein | 76 | 4% helix, 54% strand | P67809 |
| D | RNA (5'-R(P*CP*AP*UP*(5MC))-3') | rna | 4 | — | — |
Interfaces
1 interface between chains.
- A–D · 557 Ų buried · 8 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 6A6L · Crystal structure of the cold shock domain of YB-1 in complex with m5C RNA · the same entry in another collection · chain A against A, TM-score 1.00
- P67809 · AlphaFold monomer V2.0 prediction for Y-box-binding protein 1 (P67809) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 P67809
- Elsewhere: RCSB PDB 6A6L · PDBe 6A6L · UniProt P67809
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