MolNFT v1 · #14919 · protein
Crystal structure of momordin, a type I ribosome inactivating protein from the seeds of momordica charantia
1MOM: “Crystal structure of momordin, a type I ribosome inactivating protein from the seeds of momordica charantia”. X-ray diffraction, 1 ligand (NAG), 1 pocket (best druggability 0.44). MolNFT v1 #14919 on GenesisL1: 3D structure, binding…
- PDB
- 1MOM
- Type
- protein
- Length
- 246 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Momordin
- EC
- 3.2.2.22
- UniProt
- P16094
- Ligands
- NAG
- Pockets
- 1 · best druggability 0.44
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Momordin (EC 3.2.2.22) | protein | 246 | 41% helix, 24% strand | P16094 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 72 | 0.44 | 0.81 | 15 | empty |
Modifications
Observed in the structure: 1 glycan (N-glycosylation).
Compared structures
- 1MOM · Crystal structure of momordin, a type I ribosome inactivating protein from the seeds of… · the same entry in another collection · chain A against A, TM-score 1.00
- P16094 · AlphaFold monomer V2.0 prediction for ribosome-inactivating protein momordin I (P16094) · 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 P16094
- Elsewhere: RCSB PDB 1MOM · PDBe 1MOM · UniProt P16094
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