J3_4YPB_010

3D structure

PDB id

4YPB (explore in PDB, NAKB, or RNA 3D Hub)

Description

Precleavage 70S structure of the P. vulgaris HigB DeltaH92 toxin bound to the AAA codon

Experimental method

X-RAY DIFFRACTION

Resolution

3.4 Å

Loop

Sequence

CGAGCUA*UAG*CGAG

Length

14 nucleotides

Bulged bases

4YPB|1|RA|G|686, 4YPB|1|RA|G|792

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_4YPB_010 not in the Motif Atlas

Homologous match to J3_7A0S_004

Geometric discrepancy: 0.0932

The information below is about J3_7A0S_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_64189.2

Basepair signature

cWW-tWH-cWW-tSW-F-F-cWW

Number of instances in this motif group

7

Unit IDs

4YPB|1|RA|C|683
4YPB|1|RA|G|684
4YPB|1|RA|A|685
4YPB|1|RA|G|686
4YPB|1|RA|C|687
4YPB|1|RA|U|688
4YPB|1|RA|A|689
*
4YPB|1|RA|U|773
4YPB|1|RA|A|774
4YPB|1|RA|G|775
*
4YPB|1|RA|C|791
4YPB|1|RA|G|792
4YPB|1|RA|A|793
4YPB|1|RA|G|794

Current chains

Chain RA

23S rRNA

Nearby chains

Chain R7

50S ribosomal protein L34

Chain RD

50S ribosomal protein L2