IL_9DFC_317

3D structure

PDB id

9DFC (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, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.5 Å

Loop

Sequence

GGAGUACG*UGAAAC

Length

14 nucleotides

Bulged bases

None detected

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_9DFC_317 not in the Motif Atlas

Homologous match to IL_4LFB_034

Geometric discrepancy: 0.0756

The information below is about IL_4LFB_034

Detailed Annotation

8x6 Sarcin-Ricin with inserted Y; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_41756.4

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW-L

Number of instances in this motif group

4

Unit IDs

9DFC|1|2a|G|887
9DFC|1|2a|G|888
9DFC|1|2a|A|889
9DFC|1|2a|G|890
9DFC|1|2a|U|891
9DFC|1|2a|A|892
9DFC|1|2a|C|893
9DFC|1|2a|G|894
*
9DFC|1|2a|U|905
9DFC|1|2a|G|906
9DFC|1|2a|A|907
9DFC|1|2a|A|908
9DFC|1|2a|A|909
9DFC|1|2a|C|910

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2l

30S ribosomal protein S12

Chain 2q

30S ribosomal protein S17