MolNFT v1 · #124933 · protein
Hmiro ef hand and cgtpase domains, GDP and CA2+ bound state
5KTY · Mitochondrial rho GTPase 1: “Hmiro ef hand and cgtpase domains, GDP and CA2+ bound state”. X-ray diffraction, 3 ligands (GDP, CA, MG), 9 pockets (best druggability 0.70). MolNFT v1 #124933 on GenesisL1: 3D structure, binding sites…
- PDB
- 5KTY
- Type
- protein
- Length
- 397 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mitochondrial rho GTPase 1
- EC
- 3.6.5.-
- UniProt
- Q8IXI2
- Ligands
- GDP, CA, MG
- Pockets
- 9 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mitochondrial rho GTPase 1 (EC 3.6.5.-) | protein | 397 | 41% helix, 14% strand | Q8IXI2 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains A
- CA · Calcium ion · metal · 2 copies · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 205 | 0.70 | 0.86 | 23 | empty |
| 2 | 101 | 0.62 | 0.88 | 22 | empty |
| 3 | 146 | 0.50 | 0.79 | 24 | empty |
| 4 | 170 | 0.47 | 0.76 | 31 | GDP, MG |
| 5 | 99 | 0.39 | 0.76 | 16 | empty |
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 Q8IXI2
- Elsewhere: RCSB PDB 5KTY · PDBe 5KTY · UniProt Q8IXI2
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