Research workbench
Crystal structure of SQD1 protein complex with NAD and udp-glucose
Analyse Crystal structure of SQD1 protein complex with NAD and udp-glucose in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1QRR
- Type
- protein
- Length
- 390 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sulfolipid biosynthesis (SQD1) protein
- UniProt
- O48917
- Ligands
- NAD, UPG, SO4
- Pockets
- 2 · best druggability 0.88
Structure
x-ray diffraction · 1 distinct chain · 42% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sulfolipid biosynthesis (SQD1) protein | protein | 390 | 42% helix, 19% strand | O48917 |
Ligands and binding sites
- NAD · Nicotinamide-adenine-dinucleotide · ligand · chains A
- UPG · Uridine-5'-diphosphate-glucose · ligand · chains A
- SO4 · Sulfate ion · ion · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 611 | 0.88 | 0.93 | 75 | NAD, UPG |
| 2 | 61 | 0.32 | 0.76 | 20 | empty |
Compared structures
- 1QRR · Crystal structure of SQD1 protein complex with NAD and udp-glucose · the same entry in another collection · chain A against A, TM-score 1.00
- O48917 · AlphaFold monomer V2.0 prediction for udp-sulfoquinovose synthase, chloroplastic (O48917) · a predicted model of the same protein · 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 O48917
- Elsewhere: RCSB PDB 1QRR · PDBe 1QRR · UniProt O48917
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