IL_5FDV_379

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

GU(5MC)*GUC

Length

6 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: 5MC

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_379 not in the Motif Atlas

Homologous match to IL_5J7L_363

Geometric discrepancy: 0.0788

The information below is about IL_5J7L_363

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_87907.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

179

Unit IDs

5FDV|1|2a|G|1405
5FDV|1|2a|U|1406
5FDV|1|2a|5MC|1407
*
5FDV|1|2a|G|1494
5FDV|1|2a|U|1495
5FDV|1|2a|C|1496

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2A

Large subunit ribosomal RNA; LSU rRNA

Chain 2x

Ribosome-associated inhibitor A