IL_5FDV_145

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

GAGAG*UGGU

Length

9 nucleotides

Bulged bases

5FDV|1|1a|A|665

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_145 not in the Motif Atlas

Homologous match to IL_4LFB_029

Geometric discrepancy: 0.107

The information below is about IL_4LFB_029

Detailed Annotation

Tandem non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_85033.2

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

35

Unit IDs

5FDV|1|1a|G|662
5FDV|1|1a|A|663
5FDV|1|1a|G|664
5FDV|1|1a|A|665
5FDV|1|1a|G|666
*
5FDV|1|1a|U|740
5FDV|1|1a|G|741
5FDV|1|1a|G|742
5FDV|1|1a|U|743

Current chains

Chain 1a

16S ribosomal RNA

Nearby chains

Chain 1f

30S ribosomal protein S6

Chain 1o

30S ribosomal protein S15

Chain 1r

30S ribosomal protein S18