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Crystal structure of auucu repeating RNA that causes spinocerebellar ataxia type 10 (SCA10)

Analyse Crystal structure of auucu repeating RNA that causes spinocerebellar ataxia… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5BTM
Type: RNA
Length: 86 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (55-mer)
Ligands: MG, NA
Pockets: 4 · best druggability 0.46

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	RNA (55-mer)	rna	43	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 3 copies · chains A, B
NA · Sodium ion · metal · 2 copies · chains A, B

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

Pockets

4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	250	0.46	0.73	18	empty
2	242	0.46	0.73	19	empty
3	84	0.37	0.77	12	empty
4	52	0.23	0.72	10	empty

Interfaces

1 interface between chains.

A–B · 472 Å² buried · 8 hydrogen bonds · nucleic-nucleic

Compared structures

5BTM · Crystal structure of AUUCU repeating RNA that causes spinocerebellar ataxia type 10… · 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 5BTM · PDBe 5BTM

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