IL_5FDV_143

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

GA*UGAC

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_143 not in the Motif Atlas

Homologous match to IL_4LFB_027

Geometric discrepancy: 0.1195

The information below is about IL_4LFB_027

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

Major groove platform

Motif group

IL_50694.7

Basepair signature

cWW-tSH-cWW-L

Number of instances in this motif group

27

Unit IDs

5FDV|1|1a|G|654
5FDV|1|1a|A|655
*
5FDV|1|1a|U|751
5FDV|1|1a|G|752
5FDV|1|1a|A|753
5FDV|1|1a|C|754

Current chains

Chain 1a

16S ribosomal RNA

Nearby chains

Chain 1h

30S ribosomal protein S8

Chain 1o

30S ribosomal protein S15

Chain 1q

30S ribosomal protein S17