MolNFT v1 · #167454 · protein
Crystal structure of ligand-free udp-glcnac 2-epimerase from neisseria meningitidis
6VLB · Udp-N-acetylglucosamine 2-epimerase: “Crystal structure of ligand-free udp-glcnac 2-epimerase from neisseria meningitidis”. X-ray diffraction, 1 ligand (NA), 6 pockets (best druggability 0.70). MolNFT v1 #167454 on GenesisL1: 3D…
- PDB
- 6VLB
- Type
- protein
- Length
- 743 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Udp-N-acetylglucosamine 2-epimerase
- EC
- 5.1.3.14
- UniProt
- A0A0U1RGY0
- Ligands
- NA
- Pockets
- 6 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 50% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Udp-N-acetylglucosamine 2-epimerase (EC 5.1.3.14) | protein | 371 | 50% helix, 16% strand | A0A0U1RGY0 |
| B | Udp-N-acetylglucosamine 2-epimerase (EC 5.1.3.14) | protein | 372 | 50% helix, 15% strand | A0A0U1RGY0 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 637 | 0.70 | 0.78 | 53 | empty |
| 2 | 613 | 0.68 | 0.77 | 50 | empty |
| 3 | 170 | 0.64 | 0.85 | 24 | empty |
| 4 | 167 | 0.47 | 0.76 | 27 | empty |
| 5 | 76 | 0.45 | 0.81 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1468 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 6VLB · Crystal structure of ligand-free UDP-GlcNAc 2-epimerase from Neisseria meningitidis · 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 A0A0U1RGY0
- Elsewhere: RCSB PDB 6VLB · PDBe 6VLB · UniProt A0A0U1RGY0
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