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Structure of UP1 bound to RNA 5'-agu-3'

Analyse Structure of UP1 bound to RNA 5'-agu-3' in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4YOE
Type: protein + RNA
Length: 184 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Heterogeneous nuclear ribonucleoprotein A1; RNA agu
UniProt: P09651
Ligands: SO4
Pockets: 1 · best druggability 0.57

Structure

x-ray diffraction · 2 distinct chains · 23% helix, 35% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Heterogeneous nuclear ribonucleoprotein A1	protein	181	23% helix, 35% strand	P09651
E	RNA agu	rna	3	—	—

Ligands and binding sites

SO4 · Sulfate ion · ion · chains A
ACT · Acetate ion · additive · chains A

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

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	292	0.57	0.77	39	empty

Interfaces

1 interface between chains.

A–E · 471 Å² buried · 15 hydrogen bonds · protein-nucleic

Compared structures

4YOE · Structure of UP1 bound to RNA 5'-AGU-3' · the same entry in another collection · chain A against A, TM-score 1.00
P09651 · AlphaFold monomer V2.0 prediction for heterogeneous nuclear ribonucleoprotein A1 (P09651) · a predicted model of the same protein · chain A against A, TM-score 0.84

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P09651
Elsewhere: RCSB PDB 4YOE · PDBe 4YOE · UniProt P09651

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