IL_5D8B_020

3D structure

PDB id

5D8B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch

Experimental method

X-RAY DIFFRACTION

Resolution

3.63 Å

Loop

Sequence

CAUCAG*CGACGACG

Length

14 nucleotides

Bulged bases

5D8B|1|UC|U|244, 5D8B|1|UC|C|280

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_5D8B_020 not in the Motif Atlas

Homologous match to IL_4LFB_011

Geometric discrepancy: 0.0794

The information below is about IL_4LFB_011

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_46174.4

Basepair signature

cWW-cSS-tSS-tSH-L-cWW-tHW-cWW

Number of instances in this motif group

6

Unit IDs

5D8B|1|UC|C|242
5D8B|1|UC|A|243
5D8B|1|UC|U|244
5D8B|1|UC|C|245
5D8B|1|UC|A|246
5D8B|1|UC|G|247
*
5D8B|1|UC|C|277
5D8B|1|UC|G|278
5D8B|1|UC|A|279
5D8B|1|UC|C|280
5D8B|1|UC|G|281
5D8B|1|UC|A|282
5D8B|1|UC|C|283
5D8B|1|UC|G|284

Current chains

Chain UC

16S ribosomal RNA

Nearby chains

Chain MA

30S ribosomal protein S12

Chain RA

30S ribosomal protein S17