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Crystal structure of isoluecyl-tRNA lysidine synthetase

Analyse Crystal structure of isoluecyl-tRNA lysidine synthetase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1WY5
Type: protein
Length: 622 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Hypothetical UPF0072 protein AQ_1887
UniProt: O67728
Pockets: 7 · best druggability 0.72

Structure

x-ray diffraction · 1 distinct chain · 57% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Hypothetical UPF0072 protein AQ_1887	protein	311	57% helix, 13% strand	O67728

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	383	0.72	0.83	41	empty
2	352	0.67	0.81	52	empty
3	154	0.51	0.79	24	empty
4	127	0.43	0.76	27	empty
5	56	0.28	0.74	16	empty

Interfaces

1 interface between chains.

A–B · 2047 Å² buried · 10 hydrogen bonds · protein-protein

Compared structures

1WY5 · Crystal structure of isoluecyl-tRNA lysidine synthetase · the same entry in another collection · chain A against A, TM-score 1.00
O67728 · AlphaFold monomer V2.0 prediction for TRNA(ILE)-lysidine synthase (O67728) · a predicted model of the same protein · chain A 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 O67728
Elsewhere: RCSB PDB 1WY5 · PDBe 1WY5 · UniProt O67728

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