IL_5FDV_377

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

GGAAU*GGAAC

Length

10 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_377 not in the Motif Atlas

Homologous match to IL_5J7L_361

Geometric discrepancy: 0.0637

The information below is about IL_5J7L_361

Detailed Annotation

Triple non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_49751.4

Basepair signature

cWW-cWW-cWW-cWW-cWW

Number of instances in this motif group

16

Unit IDs

5FDV|1|2a|G|673
5FDV|1|2a|G|674
5FDV|1|2a|A|675
5FDV|1|2a|A|676
5FDV|1|2a|U|677
*
5FDV|1|2a|G|713
5FDV|1|2a|G|714
5FDV|1|2a|A|715
5FDV|1|2a|A|716
5FDV|1|2a|C|717

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2

Chain 2f

30S ribosomal protein S6

Chain 2k

30S ribosomal protein S11

Chain 2r

30S ribosomal protein S18