Research workbench
Macrolide 2'-phosphotransferase type II - complex with GDP and spiramycin
Analyse Macrolide 2'-phosphotransferase type II - complex with GDP and spiramycin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5IGZ
- Type
- protein
- Length
- 299 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Macrolide 2'-phosphotransferase II
- UniProt
- O32553
- Ligands
- GDP, SPR, MG
- Pockets
- 1 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Macrolide 2'-phosphotransferase II | protein | 299 | 48% helix, 16% strand | O32553 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · chains A
- SPR · Spiramycin I · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 839 | 0.80 | 0.82 | 72 | GDP, MG, SPR |
Compared structures
- 5IGZ · Macrolide 2'-phosphotransferase type II - complex with GDP and spiramycin · 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 O32553
- Elsewhere: RCSB PDB 5IGZ · PDBe 5IGZ · UniProt O32553
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