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Structure of 2S albumin seed protein from Dolichos

Analyse Structure of 2S albumin seed protein from Dolichos in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6IX1
Type: protein
Length: 673 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 1.28
Source: Dolichos
Molecule: 2S Albumin protein
Ligands: SO4
Pockets: 6 · best druggability 0.53

Structure

x-ray diffraction · resolution 1.28 · 2 distinct chains · 13% helix, 42% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	2S Albumin protein	protein	225	14% helix, 42% strand	—
B	2S Albumin protein	protein	223	13% helix, 43% strand	—

Ligands and binding sites

SO4 · Sulfate ion · ion · 9 copies · chains A, B, C

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	180	0.53	0.79	30	empty
2	71	0.42	0.80	19	SO4
3	67	0.33	0.76	20	SO4
4	55	0.31	0.76	18	empty
5	61	0.26	0.72	18	empty

Interfaces

2 interfaces between chains.

A–C · 250 Å² buried · 5 hydrogen bonds · protein-protein
A–B · 25 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

6IX1 · Structure of 2S albumin seed protein from dolichos · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 6IX1 · PDBe 6IX1

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