Research workbench
Myxococcus xanthus mgla bound to GDP
Analyse Myxococcus xanthus mgla bound to GDP in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6HJO
- Type
- protein
- Length
- 382 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mutual gliding-motility protein mgla
- UniProt
- Q1DB04
- Ligands
- GDP
- Pockets
- 7 · best druggability 0.43
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Mutual gliding-motility protein mgla | protein | 191 | 36% helix, 28% strand | Q1DB04 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 111 | 0.43 | 0.77 | 19 | empty |
| 2 | 92 | 0.40 | 0.77 | 15 | empty |
| 3 | 55 | 0.38 | 0.80 | 18 | empty |
| 4 | 85 | 0.36 | 0.75 | 18 | empty |
| 5 | 77 | 0.36 | 0.76 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 394 Ų buried · 8 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 Q1DB04
- Elsewhere: RCSB PDB 6HJO · PDBe 6HJO · UniProt Q1DB04
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