IL_4YPB_134

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

UGCGAAC*GGAGGUAUA

Length

16 nucleotides

Bulged bases

4YPB|1|RA|G|1801, 4YPB|1|RA|G|1816, 4YPB|1|RA|U|1820

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_134 not in the Motif Atlas

Homologous match to IL_7RQB_070

Geometric discrepancy: 0.0636

The information below is about IL_7RQB_070

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_17069.3

Basepair signature

cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

Number of instances in this motif group

5

Unit IDs

4YPB|1|RA|U|1798
4YPB|1|RA|G|1799
4YPB|1|RA|C|1800
4YPB|1|RA|G|1801
4YPB|1|RA|A|1802
4YPB|1|RA|A|1803
4YPB|1|RA|C|1804
*
4YPB|1|RA|G|1813
4YPB|1|RA|G|1814
4YPB|1|RA|A|1815
4YPB|1|RA|G|1816
4YPB|1|RA|G|1817
4YPB|1|RA|U|1818
4YPB|1|RA|A|1819
4YPB|1|RA|U|1820
4YPB|1|RA|A|1821

Current chains

Chain RA

23S rRNA

Nearby chains

Chain QA

Small subunit ribosomal RNA; SSU rRNA

Chain RD

50S ribosomal protein L2