J3_4YPB_050

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

CGAAG*CGCCAGAGAG*CGUAG

Length

20 nucleotides

Bulged bases

4YPB|1|RA|G|321

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_050 not in the Motif Atlas

Homologous match to J3_9DFE_006

Geometric discrepancy: 0.0601

The information below is about J3_9DFE_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46299.2

Basepair signature

cWW-F-F-F-cHH-cWW-tHS-F-cWW-cSW-tHS-cWW

Number of instances in this motif group

3

Unit IDs

4YPB|1|RA|C|297
4YPB|1|RA|G|298
4YPB|1|RA|A|299
4YPB|1|RA|A|300
4YPB|1|RA|G|301
*
4YPB|1|RA|C|316
4YPB|1|RA|G|317
4YPB|1|RA|C|318
4YPB|1|RA|C|319
4YPB|1|RA|A|320
4YPB|1|RA|G|321
4YPB|1|RA|A|322
4YPB|1|RA|G|323
4YPB|1|RA|A|324
4YPB|1|RA|G|325
*
4YPB|1|RA|C|337
4YPB|1|RA|G|338
4YPB|1|RA|U|339
4YPB|1|RA|A|340
4YPB|1|RA|G|341

Current chains

Chain RA

23S rRNA

Nearby chains

Chain RF

50S ribosomal protein L4

Chain RY

50S ribosomal protein L24