IL_5FDV_103

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

CUAGUAC*GGACCG

Length

13 nucleotides

Bulged bases

None detected

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_103 not in the Motif Atlas

Geometric match to IL_7RQB_103

Geometric discrepancy: 0.0575

The information below is about IL_7RQB_103

Detailed Annotation

Sarcin-Ricin target in LSU H95; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_16458.1

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-cWW

Number of instances in this motif group

7

Unit IDs

5FDV|1|1A|C|2664
5FDV|1|1A|U|2665
5FDV|1|1A|A|2666
5FDV|1|1A|G|2667
5FDV|1|1A|U|2668
5FDV|1|1A|A|2669
5FDV|1|1A|C|2670
*
5FDV|1|1A|G|2675
5FDV|1|1A|G|2676
5FDV|1|1A|A|2677
5FDV|1|1A|C|2678
5FDV|1|1A|C|2679
5FDV|1|1A|G|2680

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1H

50S ribosomal protein L6