IL_5FDV_305

3D structure

PDB id

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

Description

Crystal structure of the Pyrrhocoricin antimicrobial peptide bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CAUCAG*CGACGACG

Length

14 nucleotides

Bulged bases

5FDV|1|2a|U|244, 5FDV|1|2a|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_5FDV_305 not in the Motif Atlas

Homologous match to IL_4LFB_011

Geometric discrepancy: 0.0715

The information below is about IL_4LFB_011

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_46174.3

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

5FDV|1|2a|C|242
5FDV|1|2a|A|243
5FDV|1|2a|U|244
5FDV|1|2a|C|245
5FDV|1|2a|A|246
5FDV|1|2a|G|247
*
5FDV|1|2a|C|277
5FDV|1|2a|G|278
5FDV|1|2a|A|279
5FDV|1|2a|C|280
5FDV|1|2a|G|281
5FDV|1|2a|A|282
5FDV|1|2a|C|283
5FDV|1|2a|G|284

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2l

30S ribosomal protein S12

Chain 2q

30S ribosomal protein S17