HL_4YPB_038

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

GUUCAAAUC

Length

9 nucleotides

Bulged bases

None detected

QA status

Unknown status

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

HL_4YPB_038 not in the Motif Atlas

Homologous match to HL_1U0B_003

Geometric discrepancy: 0.2722

The information below is about HL_1U0B_003

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.9

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

141

Unit IDs

4YPB|1|QW|G|53
4YPB|1|QW|U|54
4YPB|1|QW|U|55
4YPB|1|QW|C|56
4YPB|1|QW|A|57
4YPB|1|QW|A|58
4YPB|1|QW|A|59
4YPB|1|QW|U|60
4YPB|1|QW|C|61

Current chains

Chain QW

tRNA fMet

Nearby chains

Chain RA

Large subunit ribosomal RNA; LSU rRNA