Research workbench
Member of S1P family of ribosomal proteins PF0399 dhh domain
Analyse Member of S1P family of ribosomal proteins PF0399 dhh domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5YH1
- Type
- protein
- Length
- 439 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Member of S1P family of ribosomal proteins
- UniProt
- Q8U3Q7
- Ligands
- MN
- Pockets
- 4 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 56% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Member of S1P family of ribosomal proteins | protein | 439 | 56% helix, 14% strand | Q8U3Q7 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1006 | 0.76 | 0.79 | 87 | empty |
| 2 | 55 | 0.36 | 0.79 | 13 | empty |
| 3 | 58 | 0.30 | 0.75 | 14 | empty |
| 4 | 51 | 0.28 | 0.75 | 14 | empty |
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 5YH1 · Member of s1p family of ribosomal proteins PF0399 DHH domain · 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
- Every structure of UniProt Q8U3Q7
- Elsewhere: RCSB PDB 5YH1 · PDBe 5YH1 · UniProt Q8U3Q7
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