J4_9DFC_001

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

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

9DFC|1|1A|U|405

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_001 not in the Motif Atlas

Homologous match to J4_9DFE_001

Geometric discrepancy: 0.0546

The information below is about J4_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_45801.6

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-F-cWW

Number of instances in this motif group

7

Unit IDs

9DFC|1|1A|C|268
9DFC|1|1A|U|269
*
9DFC|1|1A|G|370
9DFC|1|1A|A|371
9DFC|1|1A|G|372
9DFC|1|1A|U|373
9DFC|1|1A|A|374
9DFC|1|1A|C|375
*
9DFC|1|1A|G|399
9DFC|1|1A|G|400
9DFC|1|1A|A|401
9DFC|1|1A|A|402
9DFC|1|1A|U|403
9DFC|1|1A|C|404
9DFC|1|1A|U|405
9DFC|1|1A|G|406
*
9DFC|1|1A|U|421
9DFC|1|1A|A|422
9DFC|1|1A|A|423
9DFC|1|1A|G|424

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 11

50S ribosomal protein L28

Chain 1I

50S ribosomal protein L9