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Crystal structure of a. fulgidus lon proteolytic domain

Analyse Crystal structure of a. fulgidus lon proteolytic domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1Z0T
Type: protein
Length: 1,174 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Putative protease la homolog type
EC: 3.4.21.53
UniProt: O29883
Pockets: 20 · best druggability 0.68

Structure

x-ray diffraction · 2 distinct chains · 32% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, E	Putative protease la homolog type (EC 3.4.21.53)	protein	195	32% helix, 30% strand	O29883
B, C, D, F	Putative protease la homolog type (EC 3.4.21.53)	protein	196	32% helix, 27% strand	O29883

Pockets

20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	429	0.68	0.80	52	empty
2	384	0.67	0.80	46	empty
3	102	0.62	0.88	26	empty
4	314	0.61	0.78	44	empty
5	95	0.59	0.87	23	empty

Interfaces

6 interfaces between chains.

C–D · 963 Å² buried · 16 hydrogen bonds · protein-protein
A–F · 945 Å² buried · 17 hydrogen bonds · protein-protein
D–E · 930 Å² buried · 19 hydrogen bonds · protein-protein
A–B · 885 Å² buried · 14 hydrogen bonds · protein-protein
B–C · 803 Å² buried · 6 hydrogen bonds · protein-protein

Compared structures

1Z0T · Crystal Structure of A. fulgidus Lon proteolytic domain · the same entry in another collection · chain F against F, TM-score 1.00
O29883 · AlphaFold monomer V2.0 prediction for archaeal lon protease (O29883) · a predicted model of the same protein · chain A against A, TM-score 0.92

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 O29883
Elsewhere: RCSB PDB 1Z0T · PDBe 1Z0T · UniProt O29883

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