IL_5HCQ_178

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

GGGAG*CGUGGAUC

Length

13 nucleotides

Bulged bases

5HCQ|1|2A|G|98

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_178 not in the Motif Atlas

Homologous match to IL_7RQB_004

Geometric discrepancy: 0.0707

The information below is about IL_7RQB_004

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_45067.2

Basepair signature

cWW-tSS-L-tSH-L-R-R-cWW-L

Number of instances in this motif group

18

Unit IDs

5HCQ|1|2A|G|79
5HCQ|1|2A|G|80
5HCQ|1|2A|G|81
5HCQ|1|2A|A|82
5HCQ|1|2A|G|83
*
5HCQ|1|2A|C|95
5HCQ|1|2A|G|96
5HCQ|1|2A|U|97
5HCQ|1|2A|G|98
5HCQ|1|2A|G|99
5HCQ|1|2A|A|100
5HCQ|1|2A|U|101
5HCQ|1|2A|C|102

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 22

50S ribosomal protein L29

Chain 2Y

50S ribosomal protein L24