J3_5FDV_024

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

UUG*CUAAC*GGACAG

Length

14 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

J3_5FDV_024 not in the Motif Atlas

Homologous match to J3_7RQB_010

Geometric discrepancy: 0.0459

The information below is about J3_7RQB_010

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_89368.3

Basepair signature

cWW-tSH-tHW-F-cWW-tHH-cWW

Number of instances in this motif group

3

Unit IDs

5FDV|1|2A|U|2091
5FDV|1|2A|U|2092
5FDV|1|2A|G|2093
*
5FDV|1|2A|C|2196
5FDV|1|2A|U|2197
5FDV|1|2A|A|2198
5FDV|1|2A|A|2199
5FDV|1|2A|C|2200
*
5FDV|1|2A|G|2223
5FDV|1|2A|G|2224
5FDV|1|2A|A|2225
5FDV|1|2A|C|2226
5FDV|1|2A|A|2227
5FDV|1|2A|G|2228

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L28

Chain 2D

50S ribosomal protein L2

Chain 2I

50S ribosomal protein L9