MolNFT v1 · #160921 · protein

Sex hormone-binding globulin mutant E176K in complex with dvt

6PYB: “Sex hormone-binding globulin mutant E176K in complex with dvt”. X-ray diffraction, 2 ligands (P5G, CA), 1 pocket (best druggability 0.72). MolNFT v1 #160921 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6PYB
Type: protein
Length: 172 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sex hormone-binding globulin
UniProt: P04278
Ligands: P5G, CA
Pockets: 1 · best druggability 0.72

Structure

x-ray diffraction · 1 distinct chain · 7% helix, 49% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Sex hormone-binding globulin	protein	172	7% helix, 49% strand	P04278

Ligands and binding sites

P5G · 4,4'-[(3R,4R)-oxolane-3,4-diylbis(methylene)]bis(2-methoxyphenol) · ligand · chains A
CA · Calcium ion · metal · 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	264	0.72	0.86	36	P5G

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

6PYB · Sex Hormone-binding globulin mutant E176K in complex with DVT · the same entry in another collection · chain A against A, TM-score 1.00
P04278 · AlphaFold monomer V2.0 prediction for sex hormone-binding globulin (P04278) · a predicted model of the same protein · chain A against A, TM-score 0.97

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 P04278
Elsewhere: RCSB PDB 6PYB · PDBe 6PYB · UniProt P04278

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