Research workbench
Crystal structure of the smk box (SAM-III) riboswitch with SAM
Analyse Crystal structure of the smk box (SAM-III) riboswitch with SAM in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3E5C
- Type
- RNA
- Length
- 53 nucleotides
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Smk box (SAM-III) riboswitch
- Ligands
- SAM, SR
- Pockets
- 2 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Smk box (SAM-III) riboswitch | rna | 53 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 371 | 0.57 | 0.76 | 24 | SR |
| 2 | 129 | 0.41 | 0.76 | 11 | SAM |
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 3E5C · Crystal Structure of the SMK box (SAM-III) Riboswitch with SAM · 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 3E5C · PDBe 3E5C
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