MolNFT v1 · #113260 · protein
Structure of ppgpp bipa
5A9Y · GTP-binding protein: “Structure of ppgpp bipa”. X-ray diffraction, 1 ligand (G4P), 11 pockets (best druggability 0.80). MolNFT v1 #113260 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5A9Y
- Type
- protein
- Length
- 562 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GTP-binding protein
- UniProt
- B7MHF0
- Ligands
- G4P
- Pockets
- 11 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 19% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GTP-binding protein | protein | 562 | 19% helix, 24% strand | B7MHF0 |
Ligands and binding sites
- G4P · Guanosine-5',3'-tetraphosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 134 | 0.80 | 0.97 | 28 | empty |
| 2 | 63 | 0.75 | 0.98 | 17 | empty |
| 3 | 89 | 0.66 | 0.91 | 19 | empty |
| 4 | 362 | 0.64 | 0.79 | 49 | empty |
| 5 | 230 | 0.62 | 0.81 | 27 | empty |
Compared structures
- 5A9Y · Structure of ppGpp BipA · the same entry in another collection · chain A against A, 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 B7MHF0
- Elsewhere: RCSB PDB 5A9Y · PDBe 5A9Y · UniProt B7MHF0
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