IL_5FDV_212

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

CCCCCAAG*CG

Length

10 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_212 not in the Motif Atlas

Geometric match to IL_7RQB_037

Geometric discrepancy: 0.0854

The information below is about IL_7RQB_037

Detailed Annotation

SSU/LSU pseudoknot

Broad Annotation

No text annotation

Motif group

IL_15861.7

Basepair signature

cWW-L-cWW-L-L-R-cSH

Number of instances in this motif group

12

Unit IDs

5FDV|1|2A|C|1004
5FDV|1|2A|C|1005
5FDV|1|2A|C|1006
5FDV|1|2A|C|1007
5FDV|1|2A|C|1008
5FDV|1|2A|A|1009
5FDV|1|2A|A|1010
5FDV|1|2A|G|1011
*
5FDV|1|2A|C|1150
5FDV|1|2A|G|1151

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2N

50S ribosomal protein L13

Chain 2U

50S ribosomal protein L20