MolNFT v1 · #145931 · protein
Crystal structure of corynebacterium diphtheriae udp-galactopyranose mutase in complex with udp-galactopyranose (open, reduced)
6D2G: “Crystal structure of corynebacterium diphtheriae udp-galactopyranose mutase in complex with…”. X-ray diffraction, 4 ligands (FDA, GDU, NA), 2 pockets (best druggability 0.81). MolNFT v1 #145931 on GenesisL1: 3D structure, binding…
- PDB
- 6D2G
- Type
- protein
- Length
- 386 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Udp-galactopyranose mutase
- UniProt
- A0A246CDW5
- Ligands
- FDA, GDU, NA, SO4
- Pockets
- 2 · best druggability 0.81
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Udp-galactopyranose mutase | protein | 386 | 40% helix, 19% strand | A0A246CDW5 |
Ligands and binding sites
- FDA · Dihydroflavine-adenine dinucleotide · ligand · chains A
- GDU · Galactose-uridine-5'-diphosphate · ligand · chains A
- NA · Sodium ion · metal · chains A
- SO4 · Sulfate ion · ion · chains A
- IPA · Isopropyl alcohol · 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 | 1062 | 0.81 | 0.82 | 92 | FDA, GDU |
| 2 | 119 | 0.41 | 0.76 | 22 | empty |
Compared structures
- 6D2G · Crystal structure of Corynebacterium diphtheriae UDP-galactopyranose mutase in complex… · 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 A0A246CDW5
- Elsewhere: RCSB PDB 6D2G · PDBe 6D2G · UniProt A0A246CDW5
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