IL_9DFD_189

3D structure

PDB id

9DFD (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin B, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.60A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

GAAAC*GAGAUAGC

Length

13 nucleotides

Bulged bases

9DFD|1|2A|G|801, 9DFD|1|2A|G|805

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

IL_9DFD_189 not in the Motif Atlas

Homologous match to IL_5J7L_260

Geometric discrepancy: 0.0694

The information below is about IL_5J7L_260

Detailed Annotation

tHW-tHW cross-strand stack

Broad Annotation

No text annotation

Motif group

IL_54041.2

Basepair signature

cWW-L-R-L-R-tWH-L-cWW

Number of instances in this motif group

7

Unit IDs

9DFD|1|2A|G|674
9DFD|1|2A|A|675
9DFD|1|2A|A|676
9DFD|1|2A|A|677
9DFD|1|2A|C|678
*
9DFD|1|2A|G|799
9DFD|1|2A|A|800
9DFD|1|2A|G|801
9DFD|1|2A|A|802
9DFD|1|2A|U|803
9DFD|1|2A|A|804
9DFD|1|2A|G|805
9DFD|1|2A|C|806

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2F

50S ribosomal protein L4

Chain 2P

50S ribosomal protein L15