J5_9DFD_011

3D structure

PDB id

9DFD (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 B, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.60A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

CUAAAC*GGGUCGUG*CGAGUAC*GGAAUCUG*UAAG

Length

33 nucleotides

Bulged bases

9DFD|1|2A|U|272|||A, 9DFD|1|2A|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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

9DFD|1|2A|C|268
9DFD|1|2A|U|269
9DFD|1|2A|A|270
9DFD|1|2A|A|271
9DFD|1|2A|A|271|||A
9DFD|1|2A|C|271|||B
*
9DFD|1|2A|G|271|||V
9DFD|1|2A|G|271|||W
9DFD|1|2A|G|271|||X
9DFD|1|2A|U|271|||Y
9DFD|1|2A|C|271|||Z
9DFD|1|2A|G|272
9DFD|1|2A|U|272|||A
9DFD|1|2A|G|272|||B
*
9DFD|1|2A|C|366
9DFD|1|2A|G|370
9DFD|1|2A|A|371
9DFD|1|2A|G|372
9DFD|1|2A|U|373
9DFD|1|2A|A|374
9DFD|1|2A|C|375
*
9DFD|1|2A|G|399
9DFD|1|2A|G|400
9DFD|1|2A|A|401
9DFD|1|2A|A|402
9DFD|1|2A|U|403
9DFD|1|2A|C|404
9DFD|1|2A|U|405
9DFD|1|2A|G|406
*
9DFD|1|2A|U|421
9DFD|1|2A|A|422
9DFD|1|2A|A|423
9DFD|1|2A|G|424

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L28

Chain 2I

50S ribosomal protein L9