Research workbench
Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine transfer RNA crystals
Analyse Restrained refinement of two crystalline forms of yeast aspartic acid and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3TRA
- Type
- RNA
- Length
- 72 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Trnaasp
- Ligands
- MG
- Pockets
- 3 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Trnaasp | rna | 72 | — | — |
Ligands and binding sites
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 673 | 0.64 | 0.75 | 30 | empty |
| 2 | 241 | 0.50 | 0.76 | 18 | empty |
| 3 | 133 | 0.42 | 0.76 | 13 | empty |
Modifications
Observed in the structure: 8 modified (nucleotide modification).
Compared structures
- 3TRA · Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine… · 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
- Elsewhere: RCSB PDB 3TRA · PDBe 3TRA
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