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E125A mutant of oligopeptidase B from S. proteomaculans with modified hinge region

Analyse E125A mutant of oligopeptidase B from S. proteomaculans with modified hinge… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7NE4
Type: protein
Length: 676 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Oligopeptidase B
UniProt: B3VI58
Ligands: SPM
Pockets: 9 · best druggability 0.64

Structure

x-ray diffraction · 1 distinct chain · 20% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Oligopeptidase B	protein	676	20% helix, 33% strand	B3VI58

Ligands and binding sites

SPM · Spermine · ligand · 3 copies · chains A

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

Pockets

9 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	477	0.64	0.77	70	empty
2	313	0.64	0.80	53	SPM
3	322	0.61	0.78	39	empty
4	57	0.48	0.85	17	empty
5	118	0.42	0.76	17	SPM

Compared structures

7NE4 · E125A mutant of oligopeptidase B from S. proteomaculans with modified hinge region · 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 B3VI58
Elsewhere: RCSB PDB 7NE4 · PDBe 7NE4 · UniProt B3VI58

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