MolNFT v1 · #189323 · protein
Crystal structure of MICGT(W93V/V124F/ F191A/R282H) in complex with udps
7VAA · Udp-glycosyltransferase 13: “Crystal structure of MICGT(W93V/V124F/ F191A/R282H) in complex with udps”. X-ray diffraction, 1 ligand (UDP), 12 pockets (best druggability 0.85). MolNFT v1 #189323 on GenesisL1: 3D structure, binding…
- PDB
- 7VAA
- Type
- protein
- Length
- 906 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
- UDP
- Pockets
- 12 · best druggability 0.85
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Udp-glycosyltransferase 13 (EC 2.4.1.-) | protein | 453 | 46% helix, 13% strand | A0A0M4KE44 |
Ligands and binding sites
- UDP · Uridine-5'-diphosphate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 683 | 0.85 | 0.89 | 73 | UDP |
| 2 | 634 | 0.84 | 0.89 | 75 | UDP |
| 3 | 68 | 0.68 | 0.95 | 15 | empty |
| 4 | 384 | 0.58 | 0.75 | 41 | empty |
| 5 | 178 | 0.54 | 0.79 | 27 | empty |
Interfaces
1 interface between chains.
- A–B · 637 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 7VAA · Crystal structure of MiCGT(W93V/V124F/ F191A/R282H) in complex with UDPs · 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 7VAA · PDBe 7VAA · UniProt A0A0M4KE44
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