MolNFT v1 · #176180 · protein
The crystal structure of human neuropeptide Y Y2 receptor with jnj- 31020028
7DDZ · Human neuropeptide Y Y2 receptor fusion protein: “The crystal structure of human neuropeptide Y Y2 receptor with jnj- 31020028”. X-ray diffraction, 2 ligands (H46, FMN), 4 pockets (best druggability 0.78). MolNFT v1 #176180 on…
- PDB
- 7DDZ
- Type
- protein
- Length
- 437 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Human neuropeptide Y Y2 receptor fusion protein
- EC
- 3.2.1.17
- UniProt
- P49146, P00323
- Ligands
- H46, FMN
- Pockets
- 4 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 64% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Human neuropeptide Y Y2 receptor fusion protein (EC 3.2.1.17) | protein | 437 | 64% helix, 11% strand | P49146, P00323 |
Ligands and binding sites
- H46 · ~{N}-[4-[4-[(1~{S})-2-(diethylamino)-2-oxidanylidene-1-phenyl-ethyl]piperazin-1-yl]-3-fluoranyl-phenyl]-2-pyridin-3-yl-benzamide · ligand · chains A
- FMN · Flavin mononucleotide · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 896 | 0.78 | 0.81 | 69 | H46 |
| 2 | 359 | 0.65 | 0.80 | 35 | empty |
| 3 | 108 | 0.59 | 0.86 | 22 | empty |
| 4 | 102 | 0.44 | 0.79 | 24 | FMN |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7DDZ · The Crystal Structure of Human Neuropeptide Y Y2 Receptor with JNJ-31020028 · the same entry in another collection · chain A against A, TM-score 1.00
- P49146 · AlphaFold monomer V2.0 prediction for neuropeptide Y receptor type 2 (P49146) · a predicted model of the same protein · chain A against A, TM-score 0.65
- P00323 · AlphaFold monomer V2.0 prediction for flavodoxin (P00323) · a predicted model of the same protein · chain A against A, TM-score 0.34
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 P49146
- Every structure of UniProt P00323
- Elsewhere: RCSB PDB 7DDZ · PDBe 7DDZ · UniProt P49146 · UniProt P00323
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