MolNFT v1 · #71788 · protein + RNA

Structure of the RNA binding domain of the bacillus subtilis yxin protein complexed with a fragment of 23S ribosomal RNA

3MOJ · RNA (69-mer): “Structure of the RNA binding domain of the bacillus subtilis yxin protein complexed with a fragment of 23S…”. X-ray diffraction, 1 pocket (best druggability 0.71). MolNFT v1 #71788 on GenesisL1: 3D structure, binding…

PDB: 3MOJ
Type: protein + RNA
Length: 144 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (69-mer); ATP-dependent RNA helicase dbpa
EC: 3.6.1.-
UniProt: P42305
Pockets: 1 · best druggability 0.71

Structure

x-ray diffraction · 2 distinct chains · 31% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	RNA (69-mer)	rna	69	—	—
B	ATP-dependent RNA helicase dbpa (EC 3.6.1.-)	protein	75	31% helix, 27% strand	P42305

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	958	0.71	0.76	56	empty

Interfaces

1 interface between chains.

A–B · 910 Å² buried · 27 hydrogen bonds · protein-nucleic

Compared structures

3MOJ · Structure of the RNA binding domain of the Bacillus subtilis YxiN protein complexed with… · the same entry in another collection · chain A against A, TM-score 1.00
P42305 · AlphaFold monomer V2.0 prediction for ATP-dependent RNA helicase dbpa (P42305) · a predicted model of the same protein · chain B against A, TM-score 0.97

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 P42305
Elsewhere: RCSB PDB 3MOJ · PDBe 3MOJ · UniProt P42305

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