J3_4YPB_057

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

GCCUAAG*UAGGAAUCU*AGC

Length

19 nucleotides

Bulged bases

4YPB|1|XA|C|48, 4YPB|1|XA|A|50, 4YPB|1|XA|A|51

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_057 not in the Motif Atlas

Homologous match to J3_4LFB_014

Geometric discrepancy: 0.0621

The information below is about J3_4LFB_014

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46317.4

Basepair signature

cWW-cWW-cSW-F-cWW-F-F-F-F-cWW-F-F-F-F

Number of instances in this motif group

4

Unit IDs

4YPB|1|XA|G|46
4YPB|1|XA|C|47
4YPB|1|XA|C|48
4YPB|1|XA|U|49
4YPB|1|XA|A|50
4YPB|1|XA|A|51
4YPB|1|XA|G|52
*
4YPB|1|XA|U|359
4YPB|1|XA|A|360
4YPB|1|XA|G|361
4YPB|1|XA|G|362
4YPB|1|XA|A|363
4YPB|1|XA|A|364
4YPB|1|XA|U|365
4YPB|1|XA|C|366
4YPB|1|XA|U|367
*
4YPB|1|XA|A|393
4YPB|1|XA|G|394
4YPB|1|XA|C|395

Current chains

Chain XA

16S rRNA

Nearby chains

Chain XL

30S ribosomal protein S12

Chain XP

30S ribosomal protein S16