Research workbench

Distal stem I region from G. kaustophilus glyqs T box RNA

Analyse Distal stem I region from G. kaustophilus glyqs T box RNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4JRC
Type: RNA
Length: 114 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Distal stem I region of the glyqs T box leader RNA
Ligands: MG
Pockets: 5 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Distal stem I region of the glyqs T box leader RNA	rna	57	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 2 copies · chains A, B

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

Pockets

5 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	201	0.78	0.94	20	empty
2	808	0.69	0.77	31	empty
3	722	0.66	0.76	33	empty
4	155	0.43	0.75	12	empty
5	152	0.39	0.74	13	empty

Interfaces

1 interface between chains.

A–B · 497 Å² buried · 19 hydrogen bonds · nucleic-nucleic

Modifications

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

Compared structures

4JRC · Distal Stem I region from G. kaustophilus glyQS T box RNA · 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
Elsewhere: RCSB PDB 4JRC · PDBe 4JRC

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.