J4_9DFC_023

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

GACUG*CACAG*CGAC*GUAAC

Length

19 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

J4_9DFC_023 not in the Motif Atlas

Homologous match to J4_5J7L_025

Geometric discrepancy: 0.0498

The information below is about J4_5J7L_025

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61477.5

Basepair signature

cWW-tSW-F-tHS-tHS-F-cWW-cWW-F-tHS-cWW

Number of instances in this motif group

4

Unit IDs

9DFC|1|2A|G|1772
9DFC|1|2A|A|1773
9DFC|1|2A|C|1774
9DFC|1|2A|U|1775
9DFC|1|2A|G|1776
*
9DFC|1|2A|C|1788
9DFC|1|2A|A|1789
9DFC|1|2A|C|1790
9DFC|1|2A|A|1791
9DFC|1|2A|G|1792
*
9DFC|1|2A|C|1827
9DFC|1|2A|G|1828
9DFC|1|2A|A|1829
9DFC|1|2A|C|1830
*
9DFC|1|2A|G|1975
9DFC|1|2A|U|1976
9DFC|1|2A|A|1977
9DFC|1|2A|A|1978
9DFC|1|2A|C|1979

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2

Chain 2a

Small subunit ribosomal RNA; SSU rRNA