IL_4YPB_325

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

CAG*CGGG

Length

7 nucleotides

Bulged bases

4YPB|1|YA|G|2238

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

IL_4YPB_325 not in the Motif Atlas

Homologous match to IL_7RQB_082

Geometric discrepancy: 0.0883

The information below is about IL_7RQB_082

Detailed Annotation

Isolated tHS basepair with bulges

Broad Annotation

No text annotation

Motif group

IL_38958.7

Basepair signature

cWW-tHS-cWW

Number of instances in this motif group

15

Unit IDs

4YPB|1|YA|C|2081
4YPB|1|YA|A|2082
4YPB|1|YA|G|2083
*
4YPB|1|YA|C|2236
4YPB|1|YA|G|2237
4YPB|1|YA|G|2238
4YPB|1|YA|G|2239

Current chains

Chain YA

23S rRNA

Nearby chains

Chain XW

Transfer RNA; tRNA

Chain Y1

50S ribosomal protein L28

Chain YD

50S ribosomal protein L2