IL_4YPB_213

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

GGAGUACG*UGAAAC

Length

14 nucleotides

Bulged bases

None detected

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_213 not in the Motif Atlas

Homologous match to IL_4LFB_034

Geometric discrepancy: 0.0705

The information below is about IL_4LFB_034

Detailed Annotation

8x6 Sarcin-Ricin with inserted Y; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_41756.4

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW-L

Number of instances in this motif group

4

Unit IDs

4YPB|1|XA|G|887
4YPB|1|XA|G|888
4YPB|1|XA|A|889
4YPB|1|XA|G|890
4YPB|1|XA|U|891
4YPB|1|XA|A|892
4YPB|1|XA|C|893
4YPB|1|XA|G|894
*
4YPB|1|XA|U|905
4YPB|1|XA|G|906
4YPB|1|XA|A|907
4YPB|1|XA|A|908
4YPB|1|XA|A|909
4YPB|1|XA|C|910

Current chains

Chain XA

16S rRNA

Nearby chains

Chain XL

30S ribosomal protein S12

Chain XQ

30S ribosomal protein S17