J3_4YPB_002

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*CUAGUAA*UGAAUACG

Length

19 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

J3_4YPB_002 not in the Motif Atlas

Homologous match to J3_4LFB_002

Geometric discrepancy: 0.1223

The information below is about J3_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.4

Basepair signature

cWW-F-F-cSS-F-cWW-tWW-F-tWH-F-tHS-cSH-cWW

Number of instances in this motif group

4

Unit IDs

4YPB|1|QA|C|936
4YPB|1|QA|A|937
4YPB|1|QA|A|938
4YPB|1|QA|G|939
*
4YPB|1|QA|C|1344
4YPB|1|QA|U|1345
4YPB|1|QA|A|1346
4YPB|1|QA|G|1347
4YPB|1|QA|U|1348
4YPB|1|QA|A|1349
4YPB|1|QA|A|1350
*
4YPB|1|QA|U|1372
4YPB|1|QA|G|1373
4YPB|1|QA|A|1374
4YPB|1|QA|A|1375
4YPB|1|QA|U|1376
4YPB|1|QA|A|1377
4YPB|1|QA|C|1378
4YPB|1|QA|G|1379

Current chains

Chain QA

16S rRNA

Nearby chains

Chain QG

30S ribosomal protein S7

Chain QI

30S ribosomal protein S9

Chain QW

Transfer RNA; tRNA