J3_9DFD_043

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

CGAAG*CGCCAGAGAG*CGUAG

Length

20 nucleotides

Bulged bases

9DFD|1|2A|G|321

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

J3_9DFD_043 not in the Motif Atlas

Homologous match to J3_9DFE_006

Geometric discrepancy: 0.0642

The information below is about J3_9DFE_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_77124.1

Basepair signature

cWW-tSH-cHH-cSW-F-tHS-cWW-cWW-F-F-cWW-F

Number of instances in this motif group

4

Unit IDs

9DFD|1|2A|C|297
9DFD|1|2A|G|298
9DFD|1|2A|A|299
9DFD|1|2A|A|300
9DFD|1|2A|G|301
*
9DFD|1|2A|C|316
9DFD|1|2A|G|317
9DFD|1|2A|C|318
9DFD|1|2A|C|319
9DFD|1|2A|A|320
9DFD|1|2A|G|321
9DFD|1|2A|A|322
9DFD|1|2A|G|323
9DFD|1|2A|A|324
9DFD|1|2A|G|325
*
9DFD|1|2A|C|337
9DFD|1|2A|G|338
9DFD|1|2A|U|339
9DFD|1|2A|A|340
9DFD|1|2A|G|341

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2F

50S ribosomal protein L4

Chain 2Y

50S ribosomal protein L24