IL_5FDV_341

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

GUUG*CACUC

Length

9 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_341 not in the Motif Atlas

Homologous match to IL_6CZR_158

Geometric discrepancy: 0.2347

The information below is about IL_6CZR_158

Detailed Annotation

Minor groove platform

Broad Annotation

Minor groove platform

Motif group

IL_40144.1

Basepair signature

cWW-L-R-L-cWW-L

Number of instances in this motif group

1

Unit IDs

5FDV|1|2a|G|1124
5FDV|1|2a|U|1125
5FDV|1|2a|U|1126
5FDV|1|2a|G|1127
*
5FDV|1|2a|C|1145
5FDV|1|2a|A|1146
5FDV|1|2a|C|1147
5FDV|1|2a|U|1148
5FDV|1|2a|C|1149

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2i

30S ribosomal protein S9

Chain 2j

30S ribosomal protein S10