Research workbench
Crystal structure of yeast smf in spacegroup P43212
Analyse Crystal structure of yeast smf in spacegroup P43212 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1N9S
- Type
- protein
- Length
- 983 residues
- Chains
- 14
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Small nuclear ribonucleoprotein F
- UniProt
- P54999
- Pockets
- 12 · best druggability 0.67
Structure
x-ray diffraction · 7 distinct chains · 7% helix, 56% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E | Small nuclear ribonucleoprotein F | protein | 68 | 4% helix, 56% strand | P54999 |
| C, L | Small nuclear ribonucleoprotein F | protein | 74 | 8% helix, 53% strand | P54999 |
| D, H | Small nuclear ribonucleoprotein F | protein | 71 | 10% helix, 61% strand | P54999 |
| F, G, I, M | Small nuclear ribonucleoprotein F | protein | 70 | 10% helix, 57% strand | P54999 |
| J | Small nuclear ribonucleoprotein F | protein | 72 | 4% helix, 54% strand | P54999 |
| K | Small nuclear ribonucleoprotein F | protein | 69 | 9% helix, 57% strand | P54999 |
| N | Small nuclear ribonucleoprotein F | protein | 68 | 4% helix, 57% strand | P54999 |
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 780 | 0.67 | 0.75 | 87 | empty |
| 2 | 809 | 0.67 | 0.75 | 95 | empty |
| 3 | 624 | 0.62 | 0.74 | 70 | empty |
| 4 | 542 | 0.60 | 0.74 | 50 | empty |
| 5 | 292 | 0.57 | 0.77 | 42 | empty |
Interfaces
21 interfaces between chains.
- K–L · 731 Ų buried · 8 hydrogen bonds · protein-protein
- I–J · 715 Ų buried · 5 hydrogen bonds · protein-protein
- C–D · 714 Ų buried · 4 hydrogen bonds · protein-protein
- M–N · 699 Ų buried · 6 hydrogen bonds · protein-protein
- A–G · 695 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 1N9S · Crystal structure of yeast SmF in spacegroup P43212 · the same entry in another collection · chain N against N, 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 P54999
- Elsewhere: RCSB PDB 1N9S · PDBe 1N9S · UniProt P54999
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