IL_5FDV_301

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

UGAC*GG

Length

6 nucleotides

Bulged bases

5FDV|1|2a|G|129|||A, 5FDV|1|2a|A|130

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_301 not in the Motif Atlas

Homologous match to IL_4LFB_007

Geometric discrepancy: 0.1184

The information below is about IL_4LFB_007

Detailed Annotation

Multiple bulged bases

Broad Annotation

No text annotation

Motif group

IL_33761.2

Basepair signature

cWW-L-cWW

Number of instances in this motif group

3

Unit IDs

5FDV|1|2a|U|129
5FDV|1|2a|G|129|||A
5FDV|1|2a|A|130
5FDV|1|2a|C|131
*
5FDV|1|2a|G|231
5FDV|1|2a|G|232

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2p

30S ribosomal protein S16

Chain 2q

30S ribosomal protein S17

Chain 2t

30S ribosomal protein S20