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The structural identification of the interaction site and functional state of rbp for its membrane receptor

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PDB: 2NND
Type: protein
Length: 148 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major urinary protein 2
UniProt: P11589
Ligands: PRZ, CD
Pockets: 1 · best druggability 0.81

Structure

x-ray diffraction · 1 distinct chain · 16% helix, 46% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Major urinary protein 2	protein	148	16% helix, 46% strand	P11589

Ligands and binding sites

PRZ · 2-isobutyl-3-methoxypyrazine · ligand · chains A
CD · Cadmium ion · metal · 4 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	121	0.81	0.98	26	PRZ

Compared structures

2NND · The Structural Identification of the Interaction Site and Functional State of RBP for its… · the same entry in another collection · chain A against A, TM-score 1.00
P11589 · AlphaFold monomer V2.0 prediction for major urinary protein 2 (P11589) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P11589
Elsewhere: RCSB PDB 2NND · PDBe 2NND · UniProt P11589

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