J4_4YPB_012

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

GACUG*CACAG*CGAC*GUAAC

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

J4_4YPB_012 not in the Motif Atlas

Homologous match to J4_5J7L_025

Geometric discrepancy: 0.0522

The information below is about J4_5J7L_025

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61477.5

Basepair signature

cWW-tSW-F-tHS-tHS-F-cWW-cWW-F-tHS-cWW

Number of instances in this motif group

4

Unit IDs

4YPB|1|RA|G|1772
4YPB|1|RA|A|1773
4YPB|1|RA|C|1774
4YPB|1|RA|U|1775
4YPB|1|RA|G|1776
*
4YPB|1|RA|C|1788
4YPB|1|RA|A|1789
4YPB|1|RA|C|1790
4YPB|1|RA|A|1791
4YPB|1|RA|G|1792
*
4YPB|1|RA|C|1827
4YPB|1|RA|G|1828
4YPB|1|RA|A|1829
4YPB|1|RA|C|1830
*
4YPB|1|RA|G|1975
4YPB|1|RA|U|1976
4YPB|1|RA|A|1977
4YPB|1|RA|A|1978
4YPB|1|RA|C|1979

Current chains

Chain RA

23S rRNA

Nearby chains

Chain QA

Small subunit ribosomal RNA; SSU rRNA

Chain RD

50S ribosomal protein L2