MolNFT v1 · #155961 · protein
Crystal structure of alpha-momorcharin in complex with ADP
6LOR · Ribosome-inactivating protein momordin I: “Crystal structure of alpha-momorcharin in complex with ADP”. X-ray diffraction, 2 ligands (ADP, NAG), 2 pockets (best druggability 0.48). MolNFT v1 #155961 on GenesisL1: 3D structure…
- PDB
- 6LOR
- Type
- protein
- Length
- 245 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribosome-inactivating protein momordin I
- EC
- 3.2.2.22
- UniProt
- P16094
- Ligands
- ADP, NAG
- Pockets
- 2 · best druggability 0.48
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosome-inactivating protein momordin I (EC 3.2.2.22) | protein | 245 | 41% helix, 25% strand | P16094 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 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 | 0.48 | 0.79 | 22 | ADP |
| 2 | 72 | 0.39 | 0.78 | 16 | empty |
Modifications
Observed in the structure: 1 glycan (N-glycosylation).
Compared structures
- 6LOR · crystal structure of alpha-momorcharin in complex with ADP · 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 6LOR · PDBe 6LOR · UniProt P16094
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