Research workbench
Crystal structure of human fibrillarin in complex with compound 2 from single soak
Analyse Crystal structure of human fibrillarin in complex with compound 2 from single… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7SEB
- Type
- protein
- Length
- 229 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RRNA 2'-O-methyltransferase fibrillarin
- EC
- 2.1.1.-
- UniProt
- P22087
- Ligands
- 8XF
- Pockets
- 1 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 28% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RRNA 2'-O-methyltransferase fibrillarin (EC 2.1.1.-) | protein | 229 | 28% helix, 31% strand | P22087 |
Ligands and binding sites
- 8XF · 6-(trifluoromethyl)pyrimidin-4-amine · ligand · chains A
- FMT · Formic acid · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 104 | 0.50 | 0.81 | 25 | 8XF, FMT |
Compared structures
- 7SEB · Crystal structure of human Fibrillarin in complex with compound 2 from single soak · the same entry in another collection · chain A against A, TM-score 1.00
- P22087 · AlphaFold monomer V2.0 prediction for rRNA 2'-O-methyltransferase fibrillarin (P22087) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P22087
- Elsewhere: RCSB PDB 7SEB · PDBe 7SEB · UniProt P22087
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