IL_5HCQ_351

3D structure

PDB id

5HCQ (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of antimicrobial peptide Oncocin d15-19 bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

UGUAG*CGAAG

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_5HCQ_351 not in the Motif Atlas

Homologous match to IL_9DFE_026

Geometric discrepancy: 0.0928

The information below is about IL_9DFE_026

Detailed Annotation

5x5 Sarcin-Ricin with intercalated A; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_38862.5

Basepair signature

cWW-cSH-R-tWH-tHS-cWW

Number of instances in this motif group

6

Unit IDs

5HCQ|1|2A|U|904
5HCQ|1|2A|G|905
5HCQ|1|2A|U|906
5HCQ|1|2A|A|907
5HCQ|1|2A|G|908
*
5HCQ|1|2A|C|960
5HCQ|1|2A|G|961
5HCQ|1|2A|A|962
5HCQ|1|2A|A|963
5HCQ|1|2A|G|964

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 20

50S ribosomal protein L27

Chain 2B

5S ribosomal RNA; 5S rRNA

Chain 2Q

50S ribosomal protein L16