J3_4YPB_027

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

CAAUG*CCCAGUUC*GCCG

Length

17 nucleotides

Bulged bases

4YPB|1|XA|U|1240

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_027 not in the Motif Atlas

Homologous match to J3_4LFB_009

Geometric discrepancy: 0.2138

The information below is about J3_4LFB_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_37047.6

Basepair signature

cWW-cSS-tHW-F-F-F-cWW-cWW-F-cSH-F-F

Number of instances in this motif group

4

Unit IDs

4YPB|1|XA|C|1237
4YPB|1|XA|A|1238
4YPB|1|XA|A|1239
4YPB|1|XA|U|1240
4YPB|1|XA|G|1241
*
4YPB|1|XA|C|1296
4YPB|1|XA|C|1297
4YPB|1|XA|C|1298
4YPB|1|XA|A|1299
4YPB|1|XA|G|1300
4YPB|1|XA|U|1301
4YPB|1|XA|U|1302
4YPB|1|XA|C|1303
*
4YPB|1|XA|G|1334
4YPB|1|XA|C|1335
4YPB|1|XA|C|1336
4YPB|1|XA|G|1337

Current chains

Chain XA

16S rRNA

Nearby chains

Chain XG

30S ribosomal protein S7

Chain XM

30S ribosomal protein S13

Chain XU

30S ribosomal protein Thx