J3_5FDV_031

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

CUUG*CAG*CUUACG

Length

13 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

J3_5FDV_031 not in the Motif Atlas

Homologous match to J3_4LFB_005

Geometric discrepancy: 0.1545

The information below is about J3_4LFB_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_82572.1

Basepair signature

cWW-tSH-tWW-F-cWW-tHW-F-F-cWW

Number of instances in this motif group

2

Unit IDs

5FDV|1|2a|C|990
5FDV|1|2a|U|991
5FDV|1|2a|U|992
5FDV|1|2a|G|993
*
5FDV|1|2a|C|1045
5FDV|1|2a|A|1046
5FDV|1|2a|G|1047
*
5FDV|1|2a|C|1210
5FDV|1|2a|U|1211
5FDV|1|2a|U|1212
5FDV|1|2a|A|1213
5FDV|1|2a|C|1214
5FDV|1|2a|G|1215

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2n

30S ribosomal protein S14 type Z