Research workbench
Crystal structure of a N-myc downstream regulated 2 protein (NDRG2, syld, NDR2, AI182517, AU040374) from mus musculus at 1.70 a resolution
Analyse Crystal structure of a N-myc downstream regulated 2 protein (NDRG2, syld, NDR2… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2QMQ
- Type
- protein
- Length
- 278 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein NDRG2
- UniProt
- Q9QYG0
- Ligands
- BEZ, MG
- Pockets
- 2 · best druggability 0.44
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein NDRG2 | protein | 278 | 44% helix, 20% strand | Q9QYG0 |
Ligands and binding sites
- BEZ · Benzoic acid · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
- 2PE · Nonaethylene glycol · additive · 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 | 163 | 0.44 | 0.75 | 23 | empty |
| 2 | 72 | 0.32 | 0.74 | 14 | empty |
Compared structures
- 2QMQ · Crystal structure of a n-myc downstream regulated 2 protein (ndrg2, syld, ndr2, ai182517… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9QYG0 · AlphaFold monomer V2.0 prediction for protein NDRG2 (Q9QYG0) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q9QYG0
- Elsewhere: RCSB PDB 2QMQ · PDBe 2QMQ · UniProt Q9QYG0
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