IL_5FDV_288

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

UGUAAG*UUGAG

Length

11 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_288 not in the Motif Atlas

Homologous match to IL_7RQB_110

Geometric discrepancy: 0.0548

The information below is about IL_7RQB_110

Detailed Annotation

tHS double platform

Broad Annotation

No text annotation

Motif group

IL_83162.5

Basepair signature

cWW-tSH-L-tHH-L-cWW

Number of instances in this motif group

7

Unit IDs

5FDV|1|2A|U|2847
5FDV|1|2A|G|2848
5FDV|1|2A|U|2849
5FDV|1|2A|A|2850
5FDV|1|2A|A|2851
5FDV|1|2A|G|2852
*
5FDV|1|2A|U|2865
5FDV|1|2A|U|2866
5FDV|1|2A|G|2867
5FDV|1|2A|A|2868
5FDV|1|2A|G|2869

Current chains

Chain 2A

23S ribosomal RNA

Nearby chains

Chain 2R

50S ribosomal protein L17

Chain 2T

50S ribosomal protein L19

Chain 2a

Small subunit ribosomal RNA; SSU rRNA