IL_5FDV_217

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

CGAAGACAG*UCGAG

Length

14 nucleotides

Bulged bases

5FDV|1|2A|A|1046

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_217 not in the Motif Atlas

Homologous match to IL_7RQB_042

Geometric discrepancy: 0.2971

The information below is about IL_7RQB_042

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_90538.4

Basepair signature

cWW-tSS-tSH-L-tHS-R-cWW-L-L

Number of instances in this motif group

6

Unit IDs

5FDV|1|2A|C|1043
5FDV|1|2A|G|1044
5FDV|1|2A|A|1045
5FDV|1|2A|A|1046
5FDV|1|2A|G|1047
5FDV|1|2A|A|1048
5FDV|1|2A|C|1049
5FDV|1|2A|A|1050
5FDV|1|2A|G|1051
*
5FDV|1|2A|U|1108
5FDV|1|2A|C|1109
5FDV|1|2A|G|1110
5FDV|1|2A|A|1111
5FDV|1|2A|G|1112

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2H

50S ribosomal protein L6