Research workbench
Crystal structure of a GTP-binding protein from the hyperthermophilic archaeon sulfolobus solfataricus in complex with GDP
Analyse Crystal structure of a GTP-binding protein from the hyperthermophilic archaeon… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2QTH
- Type
- protein
- Length
- 311 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GTP-binding protein
- UniProt
- Q980M3
- Ligands
- GDP, CD, MG
- Pockets
- 2 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 50% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GTP-binding protein | protein | 311 | 50% helix, 20% strand | Q980M3 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · chains A
- CD · Cadmium ion · metal · 4 copies · chains A
- MG · Magnesium ion · metal · chains A
- ACT · Acetate ion · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 210 | 0.57 | 0.79 | 36 | CD, MG, GDP |
| 2 | 66 | 0.28 | 0.73 | 11 | empty |
Compared structures
- 2QTH · Crystal structure of a GTP-binding protein from the hyperthermophilic archaeon Sulfolobus… · the same entry in another collection · chain A against A, TM-score 1.00
- Q980M3 · AlphaFold monomer V2.0 prediction for GTPase hflx (Q980M3) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q980M3
- Elsewhere: RCSB PDB 2QTH · PDBe 2QTH · UniProt Q980M3
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