MolNFT v1 · #49531 · protein

Crystal structure of oligoendopeptidase-F from enterococcus faecium

2QR4 · Peptidase M3B, oligoendopeptidase F: “Crystal structure of oligoendopeptidase-F from enterococcus faecium”. X-ray diffraction, 11 pockets (best druggability 0.82). MolNFT v1 #49531 on GenesisL1: 3D structure, binding sites and…

PDB: 2QR4
Type: protein
Length: 1,027 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Peptidase M3B, oligoendopeptidase F
UniProt: Q3XYC8
Pockets: 11 · best druggability 0.82

Structure

x-ray diffraction · 2 distinct chains · 76% helix, 2% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Peptidase M3B, oligoendopeptidase F	protein	521	77% helix, 2% strand	Q3XYC8
B	Peptidase M3B, oligoendopeptidase F	protein	506	75% helix, 2% strand	Q3XYC8

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	942	0.82	0.84	86	empty
2	214	0.81	0.95	27	empty
3	1060	0.75	0.77	65	empty
4	444	0.62	0.76	57	empty
5	250	0.57	0.78	33	empty

Interfaces

1 interface between chains.

A–B · 1881 Å² buried · 24 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 20 modified (engineered).

Compared structures

2QR4 · Crystal structure of oligoendopeptidase-F from Enterococcus faecium · 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 Q3XYC8
Elsewhere: RCSB PDB 2QR4 · PDBe 2QR4 · UniProt Q3XYC8

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