MolNFT v1 · #129886 · protein

Peptst apo structure

5OXO · Di-or TRIPEPTIDE:H+ symporter: “Peptst apo structure”. X-ray diffraction, 3 ligands (78N, 78M, NA), 3 pockets (best druggability 0.77). MolNFT v1 #129886 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5OXO
Type: protein
Length: 456 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Di-or TRIPEPTIDE:H+ symporter
UniProt: Q5M4H8
Ligands: 78N, 78M, NA
Pockets: 3 · best druggability 0.77

Structure

x-ray diffraction · 1 distinct chain · 83% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Di-or TRIPEPTIDE:H+ symporter	protein	456	83% helix, 1% strand	Q5M4H8

Ligands and binding sites

78N · (2R)-2,3-dihydroxypropyl(7z)-pentadec-7-enoate · ligand · 15 copies · chains A
78M · (2S)-2,3-dihydroxypropyl(7z)-pentadec-7-enoate · ligand · 5 copies · chains A
NA · Sodium ion · metal · chains A
1PE · Pentaethylene glycol · additive · 2 copies · chains A
CIT · Citric acid · additive · chains A

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

Pockets

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	816	0.77	0.81	55	1PE
2	354	0.61	0.76	36	78N
3	120	0.40	0.74	19	empty

Compared structures

5OXO · PepTSt apo structure · 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 Q5M4H8
Elsewhere: RCSB PDB 5OXO · PDBe 5OXO · UniProt Q5M4H8

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.