MolNFT v1 · #78771 · protein
Crystal structure of the complex of type I ribosome inactivating protein from momordica balsamina with 5-(HYDROXYMETHYL)OXALANE-2,3,4- triol at 1.6 a resolution
3SJ6: “Crystal structure of the complex of type I ribosome inactivating protein from momordica balsamina with…”. X-ray diffraction, 2 ligands (RIP, NAG), 2 pockets (best druggability 0.47). MolNFT v1 #78771 on GenesisL1: 3D structure…
- PDB
- 3SJ6
- Type
- protein
- Length
- 246 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribosome inactivating protein
- UniProt
- D9J2T9
- Ligands
- RIP, NAG
- Pockets
- 2 · best druggability 0.47
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosome inactivating protein | protein | 246 | 41% helix, 25% strand | D9J2T9 |
Ligands and binding sites
- RIP · beta-D-ribopyranose · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- GOL · Glycerol · additive · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 124 | 0.47 | 0.79 | 19 | RIP |
| 2 | 59 | 0.31 | 0.75 | 13 | empty |
Modifications
Observed in the structure: 1 glycan (N-glycosylation).
Compared structures
- 3SJ6 · Crystal Structure of the complex of type I ribosome inactivating protein from momordica… · 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 D9J2T9
- Elsewhere: RCSB PDB 3SJ6 · PDBe 3SJ6 · UniProt D9J2T9
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