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Co-crystal structure of M. tuberculosis iles T-box in complex with tRNA-3'-oh

Analyse Co-crystal structure of M. tuberculosis iles T-box in complex with tRNA-3'-oh in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6UFG
Type: RNA
Length: 239 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (77-mer); RNA (166-mer)
Ligands: MG, K
Pockets: 6 · best druggability 0.71

Structure

x-ray diffraction · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	RNA (77-mer)	rna	77	—	—
A	RNA (166-mer)	rna	162	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 11 copies · chains B, A
K · Potassium ion · metal · 4 copies · chains B, A

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

Pockets

6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	870	0.71	0.77	55	K
2	943	0.67	0.74	42	MG
3	782	0.64	0.74	43	MG
4	632	0.64	0.76	33	empty
5	68	0.29	0.75	13	MG

Interfaces

1 interface between chains.

B–A · 894 Å² buried · 54 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 2 modified (nucleotide modification).

Compared structures

6UFG · Co-crystal structure of M. tuberculosis ileS T-box in complex with tRNA-3'-OH · the same entry in another collection · chain B against B, 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
Elsewhere: RCSB PDB 6UFG · PDBe 6UFG

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