Research workbench

Crystal structure of the triple-helical stability element at the 3' end of MALAT1

Analyse Crystal structure of the triple-helical stability element at the 3' end of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4PLX
Type: RNA
Length: 220 nucleotides
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Core ene hairpin and a-rich tract from MALAT1
Pockets: 7 · best druggability 0.74

Structure

x-ray diffraction · 3 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Core ene hairpin and a-rich tract from MALAT1	rna	76	—	—
B	Core ene hairpin and a-rich tract from MALAT1	rna	73	—	—
C	Core ene hairpin and a-rich tract from MALAT1	rna	71	—	—

Pockets

7 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	1126	0.74	0.78	58	empty
2	1144	0.70	0.76	59	empty
3	772	0.69	0.77	38	empty
4	365	0.51	0.73	21	empty
5	76	0.35	0.77	11	empty

Interfaces

2 interfaces between chains.

A–B · 605 Å² buried · 27 hydrogen bonds · nucleic-nucleic
B–C · 239 Å² buried · 9 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 6 modified (nucleotide modification).

Compared structures

4PLX · Crystal structure of the triple-helical stability element at the 3' end of MALAT1 · 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 4PLX · PDBe 4PLX

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