IL_5FDV_224

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

GGUU*AC

Length

6 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_224 not in the Motif Atlas

Homologous match to IL_7RQB_050

Geometric discrepancy: 0.0661

The information below is about IL_7RQB_050

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

No text annotation

Motif group

IL_50694.2

Basepair signature

cWW-tSH-cWW-L

Number of instances in this motif group

27

Unit IDs

5FDV|1|2A|G|1310
5FDV|1|2A|G|1311
5FDV|1|2A|U|1312
5FDV|1|2A|U|1313
*
5FDV|1|2A|A|1603
5FDV|1|2A|C|1604

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2X

50S ribosomal protein L23