IL_9DFD_292

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

CAUCAG*CGACGACG

Length

14 nucleotides

Bulged bases

9DFD|1|2a|U|244, 9DFD|1|2a|C|280

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_292 not in the Motif Atlas

Homologous match to IL_4LFB_011

Geometric discrepancy: 0.0853

The information below is about IL_4LFB_011

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_46174.4

Basepair signature

cWW-cSS-tSS-tSH-L-cWW-tHW-cWW

Number of instances in this motif group

6

Unit IDs

9DFD|1|2a|C|242
9DFD|1|2a|A|243
9DFD|1|2a|U|244
9DFD|1|2a|C|245
9DFD|1|2a|A|246
9DFD|1|2a|G|247
*
9DFD|1|2a|C|277
9DFD|1|2a|G|278
9DFD|1|2a|A|279
9DFD|1|2a|C|280
9DFD|1|2a|G|281
9DFD|1|2a|A|282
9DFD|1|2a|C|283
9DFD|1|2a|G|284

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2l

30S ribosomal protein S12

Chain 2q

30S ribosomal protein S17