MolNFT v1 · #118623 · protein

Rok repressor LMO0178 from listeria monocytogenes

5F7P · LMO0178 protein: “Rok repressor LMO0178 from listeria monocytogenes”. X-ray diffraction, 1 ligand (ZN), 7 pockets (best druggability 0.70). MolNFT v1 #118623 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5F7P
Type: protein
Length: 658 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: LMO0178 protein
UniProt: Q8YAF1
Ligands: ZN
Pockets: 7 · best druggability 0.70

Structure

x-ray diffraction · 2 distinct chains · 39% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
E	LMO0178 protein	protein	299	37% helix, 20% strand	Q8YAF1
A	LMO0178 protein	protein	359	41% helix, 23% strand	Q8YAF1

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains E, A

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

Pockets

7 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	379	0.70	0.82	48	empty
2	321	0.70	0.83	48	empty
3	132	0.44	0.76	20	empty
4	85	0.37	0.76	15	empty
5	78	0.34	0.75	24	empty

Interfaces

1 interface between chains.

E–A · 1904 Å² buried · 28 hydrogen bonds · protein-protein

Compared structures

5F7P · Rok Repressor Lmo0178 from Listeria monocytogenes · the same entry in another collection · chain E against E, 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 Q8YAF1
Elsewhere: RCSB PDB 5F7P · PDBe 5F7P · UniProt Q8YAF1

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