IL_5FDV_311

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

GGAAGAAG*UGUAAAC

Length

15 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_311 not in the Motif Atlas

Homologous match to IL_4LFB_017

Geometric discrepancy: 0.122

The information below is about IL_4LFB_017

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_28026.3

Basepair signature

cWW-tSH-tWH-cWH-L-tHW-tSS-tHH-cWW

Number of instances in this motif group

2

Unit IDs

5FDV|1|2a|G|409
5FDV|1|2a|G|410
5FDV|1|2a|A|411
5FDV|1|2a|A|412
5FDV|1|2a|G|413
5FDV|1|2a|A|414
5FDV|1|2a|A|415
5FDV|1|2a|G|416
*
5FDV|1|2a|U|427
5FDV|1|2a|G|428
5FDV|1|2a|U|429
5FDV|1|2a|A|430
5FDV|1|2a|A|431
5FDV|1|2a|A|432
5FDV|1|2a|C|433

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4