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Fusibacterium ulcerans ztp riboswitch bound to P-1-pyridinyl aica

Analyse Fusibacterium ulcerans ztp riboswitch bound to P-1-pyridinyl aica in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6WZR
Type: RNA
Length: 121 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Fusibacterium ulcerans ztp riboswitch
Ligands: UG1, K, MG
Pockets: 3 · best druggability 0.68

Structure

x-ray diffraction · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Fusibacterium ulcerans ztp riboswitch	rna	64	—	—
B	Fusibacterium ulcerans ztp riboswitch	rna	57	—	—

Ligands and binding sites

UG1 · 5-amino-1-(pyridin-4-yl)-1H-imidazole-4-carboxamide · ligand · 2 copies · chains A, B
K · Potassium ion · metal · 5 copies · chains A, B
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

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	515	0.68	0.80	32	K, UG1
2	463	0.66	0.80	31	UG1
3	118	0.33	0.72	13	empty

Interfaces

1 interface between chains.

A–B · 614 Å² buried · 32 hydrogen bonds · nucleic-nucleic

Compared structures

6WZR · Fusibacterium ulcerans ZTP riboswitch bound to p-1-pyridinyl AICA · 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 6WZR · PDBe 6WZR

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