IL_5FDV_221

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

CGAUGAAG*UGGAG

Length

13 nucleotides

Bulged bases

5FDV|1|2A|U|1211

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_221 not in the Motif Atlas

Homologous match to IL_7RQB_047

Geometric discrepancy: 0.0526

The information below is about IL_7RQB_047

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_70923.2

Basepair signature

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

Number of instances in this motif group

28

Unit IDs

5FDV|1|2A|C|1208
5FDV|1|2A|G|1209
5FDV|1|2A|A|1210
5FDV|1|2A|U|1211
5FDV|1|2A|G|1212
5FDV|1|2A|A|1213
5FDV|1|2A|A|1214
5FDV|1|2A|G|1215
*
5FDV|1|2A|U|1234
5FDV|1|2A|G|1235
5FDV|1|2A|G|1236
5FDV|1|2A|A|1237
5FDV|1|2A|G|1238

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2U

50S ribosomal protein L20