MolNFT v1 · #189322 · protein
Crystal structure of micgt
7VA8 · Udp-glycosyltransferase 13: “Crystal structure of micgt”. X-ray diffraction, 1 ligand (UPG), 10 pockets (best druggability 0.85). MolNFT v1 #189322 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7VA8
- Type
- protein
- Length
- 895 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Udp-glycosyltransferase 13
- EC
- 2.4.1.-
- UniProt
- A0A0M4KE44
- Ligands
- UPG
- Pockets
- 10 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Udp-glycosyltransferase 13 (EC 2.4.1.-) | protein | 456 | 51% helix, 13% strand | A0A0M4KE44 |
| B | Udp-glycosyltransferase 13 (EC 2.4.1.-) | protein | 439 | 48% helix, 14% strand | A0A0M4KE44 |
Ligands and binding sites
- UPG · Uridine-5'-diphosphate-glucose · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 697 | 0.85 | 0.88 | 75 | UPG |
| 2 | 949 | 0.83 | 0.84 | 84 | UPG |
| 3 | 82 | 0.67 | 0.93 | 20 | empty |
| 4 | 425 | 0.63 | 0.77 | 57 | empty |
| 5 | 140 | 0.58 | 0.83 | 35 | empty |
Interfaces
1 interface between chains.
- A–B · 567 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 7VA8 · Crystal structure of MiCGT · 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 A0A0M4KE44
- Elsewhere: RCSB PDB 7VA8 · PDBe 7VA8 · UniProt A0A0M4KE44
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