IL_5FDV_319

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

GU*AUAC

Length

6 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_319 not in the Motif Atlas

Homologous match to IL_4LFB_025

Geometric discrepancy: 0.1021

The information below is about IL_4LFB_025

Detailed Annotation

Major groove minor groove platform; mini C-loop

Broad Annotation

No text annotation

Motif group

IL_68140.4

Basepair signature

cWW-cSH-cWW

Number of instances in this motif group

18

Unit IDs

5FDV|1|2a|G|597
5FDV|1|2a|U|598
*
5FDV|1|2a|A|640
5FDV|1|2a|U|641
5FDV|1|2a|A|642
5FDV|1|2a|C|643

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2h

30S ribosomal protein S8

Chain 2q

30S ribosomal protein S17