MolNFT v1 · #183158 · protein

R-state of wild type human mitochondrial LONP1 protease bound to endogenous ADP

7NGL · Lon protease homolog, mitochondrial: “R-state of wild type human mitochondrial LONP1 protease bound to endogenous ADP”. Electron microscopy, 1 ligand (ADP), 20 pockets (best druggability 0.83). MolNFT v1 #183158 on GenesisL1: 3D…

PDB: 7NGL
Type: protein
Length: 4,656 residues
Chains: 6
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Lon protease homolog, mitochondrial
EC: 3.4.21.53
UniProt: P36776
Ligands: ADP
Pockets: 20 · best druggability 0.83

Structure

electron microscopy · 1 distinct chain · 45% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F	Lon protease homolog, mitochondrial (EC 3.4.21.53)	protein	776	45% helix, 10% strand	P36776

Ligands and binding sites

ADP · Adenosine-5'-diphosphate · ligand · 6 copies · chains A, B, C, D, E, F

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

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	748	0.83	0.86	92	empty
2	918	0.82	0.83	98	empty
3	903	0.79	0.81	89	empty
4	728	0.79	0.83	73	empty
5	950	0.79	0.81	82	ADP

Interfaces

15 interfaces between chains.

C–D · 2567 Å² buried · 25 hydrogen bonds · protein-protein
A–B · 2509 Å² buried · 22 hydrogen bonds · protein-protein
E–F · 2470 Å² buried · 22 hydrogen bonds · protein-protein
A–F · 2251 Å² buried · 23 hydrogen bonds · protein-protein
B–C · 2161 Å² buried · 25 hydrogen bonds · protein-protein

Compared structures

7NGL · R-state of wild type human mitochondrial LONP1 protease bound to endogenous ADP · 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 P36776
Elsewhere: RCSB PDB 7NGL · PDBe 7NGL · UniProt P36776

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