IL_5FDV_183

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

UGAGUAG*CGAAAG

Length

13 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_183 not in the Motif Atlas

Homologous match to IL_7RQB_007

Geometric discrepancy: 0.0464

The information below is about IL_7RQB_007

Detailed Annotation

7x6 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_76042.2

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

9

Unit IDs

5FDV|1|2A|U|239
5FDV|1|2A|G|240
5FDV|1|2A|A|241
5FDV|1|2A|G|242
5FDV|1|2A|U|243
5FDV|1|2A|A|244
5FDV|1|2A|G|245
*
5FDV|1|2A|C|253
5FDV|1|2A|G|254
5FDV|1|2A|A|255
5FDV|1|2A|A|256
5FDV|1|2A|A|257
5FDV|1|2A|G|258

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 28

50S ribosomal protein L35

Chain 2P

50S ribosomal protein L15