J5_9DFC_018

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

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 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

J5_9DFC_018 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.0722

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

9DFC|1|2a|C|36
9DFC|1|2a|U|37
9DFC|1|2a|G|38
9DFC|1|2a|G|39
*
9DFC|1|2a|C|403
9DFC|1|2a|U|404
9DFC|1|2a|U|405
9DFC|1|2a|G|406
*
9DFC|1|2a|C|436
9DFC|1|2a|U|437
9DFC|1|2a|G|438
9DFC|1|2a|A|439
9DFC|1|2a|A|441
9DFC|1|2a|C|442
*
9DFC|1|2a|G|492
9DFC|1|2a|G|493
9DFC|1|2a|U|494
9DFC|1|2a|A|495
9DFC|1|2a|A|496
9DFC|1|2a|U|498
9DFC|1|2a|A|499
9DFC|1|2a|G|500
*
9DFC|1|2a|C|545
9DFC|1|2a|G|546
9DFC|1|2a|A|547
9DFC|1|2a|G|548

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4

Chain 2l

30S ribosomal protein S12