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
UUUA*UUUG*CG*CGCC*GCCUAGUGAACC*GAUCAACGGAUAAAA
Length
41 nucleotides
Bulged bases
4YPB|1|YA|U|2076, 4YPB|1|YA|A|2388, 4YPB|1|YA|U|2390, 4YPB|1|YA|G|2428, 4YPB|1|YA|A|2430, 4YPB|1|YA|U|2431
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
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
Not in a motif group
Basepair signature
Not available
Number of instances in this motif group
0

Unit IDs

4YPB|1|YA|U|2074
4YPB|1|YA|U|2075
4YPB|1|YA|U|2076
4YPB|1|YA|A|2077
*
4YPB|1|YA|U|2243
4YPB|1|YA|U|2244
4YPB|1|YA|U|2245
4YPB|1|YA|G|2246
*
4YPB|1|YA|C|2258
4YPB|1|YA|G|2259
*
4YPB|1|YA|C|2281
4YPB|1|YA|G|2282
4YPB|1|YA|C|2283
4YPB|1|YA|C|2284
*
4YPB|1|YA|G|2384
4YPB|1|YA|C|2385
4YPB|1|YA|C|2386
4YPB|1|YA|U|2387
4YPB|1|YA|A|2388
4YPB|1|YA|G|2389
4YPB|1|YA|U|2390
4YPB|1|YA|G|2391
4YPB|1|YA|A|2392
4YPB|1|YA|A|2393
4YPB|1|YA|C|2394
4YPB|1|YA|C|2395
*
4YPB|1|YA|G|2421
4YPB|1|YA|A|2422
4YPB|1|YA|U|2423
4YPB|1|YA|C|2424
4YPB|1|YA|A|2425
4YPB|1|YA|A|2426
4YPB|1|YA|C|2427
4YPB|1|YA|G|2428
4YPB|1|YA|G|2429
4YPB|1|YA|A|2430
4YPB|1|YA|U|2431
4YPB|1|YA|A|2432
4YPB|1|YA|A|2433
4YPB|1|YA|A|2434
4YPB|1|YA|A|2435

Current chains

Chain YA
23S rRNA

Nearby chains

Chain XW
Transfer RNA; tRNA
Chain Y0
50S ribosomal protein L27
Chain Y1
50S ribosomal protein L28
Chain Y6
50S ribosomal protein L33
Chain Y8
50S ribosomal protein L35
Chain YD
50S ribosomal protein L2
Chain YP
50S ribosomal protein L15

Coloring options:

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