IL_5FDV_343

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

CUGC*GAGGAAG

Length

11 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_343 not in the Motif Atlas

Geometric match to IL_5J7L_053

Geometric discrepancy: 0.1392

The information below is about IL_5J7L_053

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_42032.1

Basepair signature

cWW-cSH-cWW-tWH-L-cWW-L-L

Number of instances in this motif group

2

Unit IDs

5FDV|1|2a|C|1158
5FDV|1|2a|U|1159
5FDV|1|2a|G|1160
5FDV|1|2a|C|1161
*
5FDV|1|2a|G|1175
5FDV|1|2a|A|1176
5FDV|1|2a|G|1177
5FDV|1|2a|G|1178
5FDV|1|2a|A|1179
5FDV|1|2a|A|1180
5FDV|1|2a|G|1181

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2b

30S ribosomal protein S2

Chain 2i

30S ribosomal protein S9