J3_4YPB_032

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

CAAG*CGCAAAC*GUG

Length

14 nucleotides

Bulged bases

4YPB|1|YA|A|1609

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_032 not in the Motif Atlas

Homologous match to J3_7RQB_008

Geometric discrepancy: 0.0515

The information below is about J3_7RQB_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_16623.1

Basepair signature

cWW-tSH-tWW-tHH-F-tHW-cWW-F-cWW

Number of instances in this motif group

2

Unit IDs

4YPB|1|YA|C|1306
4YPB|1|YA|A|1307
4YPB|1|YA|A|1308
4YPB|1|YA|G|1309
*
4YPB|1|YA|C|1605
4YPB|1|YA|G|1606
4YPB|1|YA|C|1607
4YPB|1|YA|A|1608
4YPB|1|YA|A|1609
4YPB|1|YA|A|1610
4YPB|1|YA|C|1611
*
4YPB|1|YA|G|1620
4YPB|1|YA|U|1621
4YPB|1|YA|G|1622

Current chains

Chain YA

23S rRNA

Nearby chains

Chain Y7

50S ribosomal protein L34