Research workbench

Crystal structure of the bacterial A1408ME1A-mutant ribosomal decoding site

Analyse Crystal structure of the bacterial A1408ME1A-mutant ribosomal decoding site in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5ZEG
Type: RNA
Length: 69 nucleotides
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*(1MA) P*CP*GP*UP*CP*GP*AP*CP*GP*AP*AP*GP*UP*CP*GP*C)-3')
Pockets: 1 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	RNA (5'-R(UPUPGPCPGPUPCP(1MA) PCPGPUPCPGPAPCPGPAPAPGPUPCPGP*C)-3')	rna	23	—	—

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1097	0.70	0.75	41	empty

Interfaces

3 interfaces between chains.

A–B · 1082 Å² buried · 101 hydrogen bonds · nucleic-nucleic
A–C · 156 Å² buried · 11 hydrogen bonds · nucleic-nucleic
B–C · 43 Å² buried · 0 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 3 modified (nucleotide modification).

Compared structures

5ZEG · Crystal structure of the bacterial A1408me1A-mutant ribosomal decoding site · 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 5ZEG · PDBe 5ZEG

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