MolNFT v1 · #39411 · protein
Crystal structure of human gem G-domain bound to GDP
2HT6 · GTP-binding protein gem: “Crystal structure of human gem G-domain bound to GDP”. X-ray diffraction, 2 ligands (GDP, MG), 2 pockets (best druggability 0.33). MolNFT v1 #39411 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 2HT6
- Type
- protein
- Length
- 331 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GTP-binding protein gem
- UniProt
- P55040
- Ligands
- GDP, MG
- Pockets
- 2 · best druggability 0.33
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GTP-binding protein gem | protein | 166 | 37% helix, 25% strand | P55040 |
| B | GTP-binding protein gem | protein | 165 | 37% helix, 26% strand | P55040 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 75 | 0.33 | 0.75 | 17 | empty |
| 2 | 72 | 0.32 | 0.75 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 855 Ų buried · 9 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 P55040
- Elsewhere: RCSB PDB 2HT6 · PDBe 2HT6 · UniProt P55040
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