MolNFT v1 · #7139 · protein

Crystal structure of soybean proglycinin A1AB1B homotrimer

1FXZ · Glycinin G1: “Crystal structure of soybean proglycinin A1AB1B homotrimer”. X-ray diffraction, 7 pockets (best druggability 0.75). MolNFT v1 #7139 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1FXZ
Type: protein
Length: 1,113 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Glycinin G1
UniProt: P04776
Pockets: 7 · best druggability 0.75

Structure

x-ray diffraction · 1 distinct chain · 14% helix, 36% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	Glycinin G1	protein	371	14% helix, 36% strand	P04776

Pockets

7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	890	0.75	0.79	80	empty
2	60	0.62	0.92	15	empty
3	50	0.58	0.91	20	empty
4	155	0.48	0.77	23	empty
5	144	0.46	0.77	28	empty

Interfaces

3 interfaces between chains.

B–C · 2816 Å² buried · 31 hydrogen bonds · protein-protein
A–B · 2782 Å² buried · 36 hydrogen bonds · protein-protein
A–C · 2747 Å² buried · 31 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide (disulfide).

Compared structures

1FXZ · Crystal structure of soybean proglycinin A1AB1B homotrimer · the same entry in another collection · chain A against A, TM-score 1.00
P04776 · AlphaFold monomer V2.0 prediction for glycinin G1 (P04776) · 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 P04776
Elsewhere: RCSB PDB 1FXZ · PDBe 1FXZ · UniProt P04776

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