IL_5FDV_042

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|1A|A|1092

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_042 not in the Motif Atlas

Homologous match to IL_7RQB_042

Geometric discrepancy: 0.1093

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|1A|C|1089
5FDV|1|1A|G|1090
5FDV|1|1A|A|1091
5FDV|1|1A|A|1092
5FDV|1|1A|G|1093
5FDV|1|1A|A|1094
5FDV|1|1A|C|1095
5FDV|1|1A|A|1096
5FDV|1|1A|G|1097
*
5FDV|1|1A|U|1154
5FDV|1|1A|C|1155
5FDV|1|1A|G|1156
5FDV|1|1A|A|1157
5FDV|1|1A|G|1158

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1H

50S ribosomal protein L6