J3_9DFD_057

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

GCCUAAG*UAGGAAUCU*AGC

Length

19 nucleotides

Bulged bases

9DFD|1|2a|C|48, 9DFD|1|2a|A|50, 9DFD|1|2a|A|51

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_057 not in the Motif Atlas

Homologous match to J3_4LFB_014

Geometric discrepancy: 0.0772

The information below is about J3_4LFB_014

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_63856.1

Basepair signature

cWW-cWW-cSW-F-cWW-F-tHH-F-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

9DFD|1|2a|G|46
9DFD|1|2a|C|47
9DFD|1|2a|C|48
9DFD|1|2a|U|49
9DFD|1|2a|A|50
9DFD|1|2a|A|51
9DFD|1|2a|G|52
*
9DFD|1|2a|U|359
9DFD|1|2a|A|360
9DFD|1|2a|G|361
9DFD|1|2a|G|362
9DFD|1|2a|A|363
9DFD|1|2a|A|364
9DFD|1|2a|U|365
9DFD|1|2a|C|366
9DFD|1|2a|U|367
*
9DFD|1|2a|A|393
9DFD|1|2a|G|394
9DFD|1|2a|C|395

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2l

30S ribosomal protein S12

Chain 2p

30S ribosomal protein S16