IL_5FDV_333

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

GACAU*AC

Length

7 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_333 not in the Motif Atlas

Homologous match to IL_4LFB_039

Geometric discrepancy: 0.1854

The information below is about IL_4LFB_039

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_47078.3

Basepair signature

cWW-cWS-L-cWW-L

Number of instances in this motif group

4

Unit IDs

5FDV|1|2a|G|993
5FDV|1|2a|A|994
5FDV|1|2a|C|995
5FDV|1|2a|A|996
5FDV|1|2a|U|997
*
5FDV|1|2a|A|1044
5FDV|1|2a|C|1045

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2n

30S ribosomal protein S14 type Z