IL_5FDV_068

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

CGUAAC*GGAGAAG

Length

13 nucleotides

Bulged bases

5FDV|1|1A|G|1746

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_068 not in the Motif Atlas

Geometric match to IL_7RQB_068

Geometric discrepancy: 0.0388

The information below is about IL_7RQB_068

Detailed Annotation

tSH-tSH-tHH-tHS

Broad Annotation

No text annotation

Motif group

IL_65969.2

Basepair signature

cWW-tSH-tSH-tHH-tHS-cWW

Number of instances in this motif group

8

Unit IDs

5FDV|1|1A|C|1733
5FDV|1|1A|G|1734
5FDV|1|1A|U|1735
5FDV|1|1A|A|1736
5FDV|1|1A|A|1737
5FDV|1|1A|C|1738
*
5FDV|1|1A|G|1743
5FDV|1|1A|G|1744
5FDV|1|1A|A|1745
5FDV|1|1A|G|1746
5FDV|1|1A|A|1747
5FDV|1|1A|A|1748
5FDV|1|1A|G|1749

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1D

50S ribosomal protein L2

Chain 1a

Small subunit ribosomal RNA; SSU rRNA