MolNFT v1 · #160543 · protein
Structure of a udp-gale 4-epimerase (MTH375) from the thermophilic pseudomurein-containing methanogen methanothermobacter thermautotrophicus
6PNL · Udp-glucose 4-epimerase related protein: “Structure of a udp-gale 4-epimerase (MTH375) from the thermophilic pseudomurein-containing methanogen…”. X-ray diffraction, 3 ligands (NAD, UDP, SO4), 3 pockets (best druggability 0.83).…
- PDB
- 6PNL
- Type
- protein
- Length
- 336 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Udp-glucose 4-epimerase related protein
- EC
- 5.1.3.7
- UniProt
- O26475
- Ligands
- NAD, UDP, SO4
- Pockets
- 3 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Udp-glucose 4-epimerase related protein (EC 5.1.3.7) | protein | 336 | 44% helix, 17% strand | O26475 |
Ligands and binding sites
- NAD · Nicotinamide-adenine-dinucleotide · ligand · chains A
- UDP · Uridine-5'-diphosphate · ligand · chains A
- SO4 · Sulfate ion · ion · chains A
- EDO · 1,2-ethanediol · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 673 | 0.83 | 0.87 | 72 | NAD, UDP |
| 2 | 236 | 0.50 | 0.75 | 28 | EDO |
| 3 | 53 | 0.47 | 0.85 | 17 | empty |
Modifications
Observed in the structure: 2 modified (artifact).
Compared structures
- 6PNL · Structure of Epimerase Mth375 from the thermophilic pseudomurein-containing methanogen… · 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 O26475
- Elsewhere: RCSB PDB 6PNL · PDBe 6PNL · UniProt O26475
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