Research workbench
The crystal structure of arabidopsis thaliana galactolipid synthase MGD1 in complex with udp
Analyse The crystal structure of arabidopsis thaliana galactolipid synthase MGD1 in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4X1T
- Type
- protein
- Length
- 321 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Monogalactosyldiacylglycerol synthase 1, chloroplastic
- EC
- 2.4.1.46
- UniProt
- O81770
- Ligands
- UDP
- Pockets
- 1 · best druggability 0.67
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Monogalactosyldiacylglycerol synthase 1, chloroplastic (EC 2.4.1.46) | protein | 321 | 40% helix, 17% strand | O81770 |
Ligands and binding sites
- UDP · Uridine-5'-diphosphate · ligand · chains A
- EDO · 1,2-ethanediol · additive · 9 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 362 | 0.67 | 0.81 | 47 | UDP |
Compared structures
- 4X1T · The crystal structure of Arabidopsis thaliana galactolipid synthase MGD1 in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- O81770 · AlphaFold monomer V2.0 prediction for monogalactosyldiacylglycerol synthase 1… · a predicted model of the same protein · chain A against A, TM-score 0.96
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 O81770
- Elsewhere: RCSB PDB 4X1T · PDBe 4X1T · UniProt O81770
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