IL_4YPB_381

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

GG*UCC

Length

5 nucleotides

Bulged bases

4YPB|1|YA|C|2879

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_381 not in the Motif Atlas

Homologous match to IL_9DFE_107

Geometric discrepancy: 0.1039

The information below is about IL_9DFE_107

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_61258.15

Basepair signature

cWW-L-cWW

Number of instances in this motif group

41

Unit IDs

4YPB|1|YA|G|2838
4YPB|1|YA|G|2839
*
4YPB|1|YA|U|2878
4YPB|1|YA|C|2879
4YPB|1|YA|C|2880

Current chains

Chain YA

23S rRNA

Nearby chains

Chain YR

50S ribosomal protein L17

Chain YT

50S ribosomal protein L19