IL_5FDV_107

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

GAUAAC*GGAAGC

Length

12 nucleotides

Bulged bases

5FDV|1|1A|A|2778

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_107 not in the Motif Atlas

Homologous match to IL_7RQB_107

Geometric discrepancy: 0.046

The information below is about IL_7RQB_107

Detailed Annotation

UAA/GAN with extra cWW

Broad Annotation

No text annotation

Motif group

IL_49767.5

Basepair signature

cWW-cWW-tWH-L-tHS-cWW

Number of instances in this motif group

5

Unit IDs

5FDV|1|1A|G|2750
5FDV|1|1A|A|2751
5FDV|1|1A|U|2752
5FDV|1|1A|A|2753
5FDV|1|1A|A|2754
5FDV|1|1A|C|2755
*
5FDV|1|1A|G|2775
5FDV|1|1A|G|2776
5FDV|1|1A|A|2777
5FDV|1|1A|A|2778
5FDV|1|1A|G|2779
5FDV|1|1A|C|2780

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L36

Chain 1H

50S ribosomal protein L6

Chain 1N

50S ribosomal protein L13