IL_5FDV_361

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

UGA*UG

Length

5 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_361 not in the Motif Atlas

Homologous match to IL_9DFE_093

Geometric discrepancy: 0.0579

The information below is about IL_9DFE_093

Detailed Annotation

Major groove platform

Broad Annotation

No text annotation

Motif group

IL_48076.6

Basepair signature

cWW-cSH-cWW

Number of instances in this motif group

41

Unit IDs

5FDV|1|1A|U|2469
5FDV|1|1A|G|2470
5FDV|1|1A|A|2471
*
5FDV|1|1A|U|2505
5FDV|1|1A|G|2506

Current chains

Chain 1A

23S ribosomal RNA

Nearby chains

Chain 1Q

50S ribosomal protein L16

Chain 1y

Pyrrhocoricin