Research workbench

Dissecting the in vivo assembly of the 30S ribosomal subunit reveals the role of rimm

Analyse Dissecting the in vivo assembly of the 30S ribosomal subunit reveals the role… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3J2C
Type: RNA
Length: 1,533 nucleotides
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 16S rRNA head domain; 16S rRNA body domain
Pockets: 20 · best druggability 0.78

Structure

electron microscopy · 3 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
M	16S rRNA head domain	rna	462	—	—
N	16S rRNA body domain	rna	927	—	—
O	16S rRNA body domain	rna	144	—	—

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	745	0.78	0.84	40	empty
2	304	0.73	0.87	25	empty
3	744	0.71	0.79	40	empty
4	591	0.70	0.80	38	empty
5	523	0.70	0.81	38	empty

Interfaces

3 interfaces between chains.

N–O · 3742 Å² buried · 178 hydrogen bonds · nucleic-nucleic
M–N · 746 Å² buried · 47 hydrogen bonds · nucleic-nucleic
M–O · 649 Å² buried · 30 hydrogen bonds · nucleic-nucleic

Compared structures

3J2C · Dissecting the in vivo assembly of the 30S ribosomal subunit reveals the role of RimM · the same entry in another collection · chain M against M, 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 3J2C · PDBe 3J2C

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