J4_9DFC_021

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

UC*GGUUAG*CU*ACCCGUA

Length

17 nucleotides

Bulged bases

9DFC|1|2A|U|1341

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

J4_9DFC_021 not in the Motif Atlas

Homologous match to J4_9DFE_005

Geometric discrepancy: 0.0626

The information below is about J4_9DFE_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_10313.5

Basepair signature

cWW-cWW-tHW-F-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

5

Unit IDs

9DFC|1|2A|U|1313
9DFC|1|2A|C|1314
*
9DFC|1|2A|G|1338
9DFC|1|2A|G|1339
9DFC|1|2A|U|1340
9DFC|1|2A|U|1341
9DFC|1|2A|A|1342
9DFC|1|2A|G|1343
*
9DFC|1|2A|C|1404
9DFC|1|2A|U|1405
*
9DFC|1|2A|A|1597
9DFC|1|2A|C|1598
9DFC|1|2A|C|1599
9DFC|1|2A|C|1600
9DFC|1|2A|G|1601
9DFC|1|2A|U|1602
9DFC|1|2A|A|1603

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2X

50S ribosomal protein L23