MolNFT v1 · #28298 · protein
Crystal structure of the N-terminal domain of human SMG7
1YA0 · Smg-7 transcript variant 2: “Crystal structure of the N-terminal domain of human SMG7”. X-ray diffraction, 1 ligand (SO4), 18 pockets (best druggability 0.73). MolNFT v1 #28298 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 1YA0
- Type
- protein
- Length
- 922 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Smg-7 transcript variant 2
- UniProt
- Q92540
- Ligands
- SO4
- Pockets
- 18 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 67% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Smg-7 transcript variant 2 | protein | 458 | 67% helix, 3% strand | Q92540 |
| B | Smg-7 transcript variant 2 | protein | 464 | 67% helix, 3% strand | Q92540 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
18 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 555 | 0.73 | 0.81 | 46 | empty |
| 2 | 459 | 0.64 | 0.77 | 34 | empty |
| 3 | 126 | 0.61 | 0.85 | 18 | empty |
| 4 | 128 | 0.61 | 0.85 | 18 | empty |
| 5 | 120 | 0.60 | 0.86 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1738 Ų buried · 35 hydrogen bonds · protein-protein
Compared structures
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 Q92540
- Elsewhere: RCSB PDB 1YA0 · PDBe 1YA0 · UniProt Q92540
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