IL_5FDV_047

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|1A|U|1256

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_047 not in the Motif Atlas

Homologous match to IL_7RQB_047

Geometric discrepancy: 0.0461

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|1A|C|1253
5FDV|1|1A|G|1254
5FDV|1|1A|A|1255
5FDV|1|1A|U|1256
5FDV|1|1A|G|1257
5FDV|1|1A|A|1258
5FDV|1|1A|A|1259
5FDV|1|1A|G|1260
*
5FDV|1|1A|U|1280
5FDV|1|1A|G|1281
5FDV|1|1A|G|1282
5FDV|1|1A|A|1283
5FDV|1|1A|G|1284

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1U

50S ribosomal protein L20