J3_5HCQ_024

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

CAUC*GUU*AUUAAAG

Length

14 nucleotides

Bulged bases

5HCQ|1|2A|A|2529, 5HCQ|1|2A|U|2530

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

J3_5HCQ_024 not in the Motif Atlas

Homologous match to J3_7RQB_012

Geometric discrepancy: 0.0508

The information below is about J3_7RQB_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_32601.3

Basepair signature

cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW

Number of instances in this motif group

4

Unit IDs

5HCQ|1|2A|C|2528
5HCQ|1|2A|A|2529
5HCQ|1|2A|U|2530
5HCQ|1|2A|C|2531
*
5HCQ|1|2A|G|2556
5HCQ|1|2A|U|2557
5HCQ|1|2A|U|2558
*
5HCQ|1|2A|A|2572
5HCQ|1|2A|U|2573
5HCQ|1|2A|U|2574
5HCQ|1|2A|A|2575
5HCQ|1|2A|A|2576
5HCQ|1|2A|A|2577
5HCQ|1|2A|G|2578

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2N

50S ribosomal protein L13

Chain 2O

50S ribosomal protein L14