MolNFT v1 · #96198 · protein

CLPP2 from listeria monocytogenes

4JCT · ATP-dependent clp protease proteolytic subunit: “CLPP2 from listeria monocytogenes”. X-ray diffraction, 20 pockets (best druggability 0.69). MolNFT v1 #96198 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4JCT
Type: protein
Length: 1,288 residues
Chains: 7
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: ATP-dependent clp protease proteolytic subunit
EC: 3.4.21.92
UniProt: Q9RQI6
Pockets: 20 · best druggability 0.69

Structure

x-ray diffraction · 1 distinct chain · 43% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G	ATP-dependent clp protease proteolytic subunit (EC 3.4.21.92)	protein	184	43% helix, 18% strand	Q9RQI6

Pockets

20 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	285	0.69	0.84	70	empty
2	262	0.64	0.82	58	empty
3	108	0.49	0.80	27	empty
4	59	0.46	0.83	11	empty
5	62	0.42	0.81	15	empty

Interfaces

8 interfaces between chains.

F–G · 1682 Å² buried · 15 hydrogen bonds · protein-protein
E–F · 1667 Å² buried · 14 hydrogen bonds · protein-protein
C–D · 1664 Å² buried · 12 hydrogen bonds · protein-protein
D–E · 1660 Å² buried · 12 hydrogen bonds · protein-protein
A–B · 1653 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

4JCT · ClpP2 from Listeria monocytogenes · the same entry in another collection · chain G against G, TM-score 1.00
Q9RQI6 · AlphaFold monomer V2.0 prediction for ATP-dependent clp protease proteolytic subunit… · a predicted model of the same protein · chain F against A, TM-score 0.95

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 Q9RQI6
Elsewhere: RCSB PDB 4JCT · PDBe 4JCT · UniProt Q9RQI6

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