MolNFT v1 · #171568 · protein

Enterococcal prga

6Z9L: “Enterococcal prga”. X-ray diffraction, 1 ligand (SO4), 4 pockets (best druggability 0.49). MolNFT v1 #171568 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6Z9L
Type: protein
Length: 762 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Prga; Poly-alanine peptide
UniProt: Q04111
Ligands: SO4
Pockets: 4 · best druggability 0.49

Structure

x-ray diffraction · 2 distinct chains · 79% helix, 4% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Prga	protein	744	79% helix, 4% strand	Q04111
F, G	Poly-alanine peptide	protein	9	44% helix, 0% strand	—

Ligands and binding sites

SO4 · Sulfate ion · ion · 14 copies · 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	87	0.49	0.82	22	empty
2	126	0.39	0.74	21	SO4
3	59	0.29	0.74	12	empty
4	52	0.26	0.73	13	empty

Interfaces

3 interfaces between chains.

A–G · 230 Å² buried · 1 hydrogen bond · protein-protein
A–F · 185 Å² buried · 1 hydrogen bond · protein-protein
F–G · 33 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

6Z9L · Enterococcal PrgA · 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
Every structure of UniProt Q04111
Elsewhere: RCSB PDB 6Z9L · PDBe 6Z9L · UniProt Q04111

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