IL_5HCQ_265

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

AUC*GGUUU

Length

8 nucleotides

Bulged bases

5HCQ|1|2A|U|2502

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_265 not in the Motif Atlas

Geometric match to IL_7RQB_094

Geometric discrepancy: 0.0875

The information below is about IL_7RQB_094

Detailed Annotation

Major groove minor groove platform with extra cWW

Broad Annotation

Major groove minor groove platform; mini C-loop

Motif group

IL_92788.2

Basepair signature

cWW-L-R-L-cWW-L

Number of instances in this motif group

14

Unit IDs

5HCQ|1|2A|A|2470
5HCQ|1|2A|U|2471
5HCQ|1|2A|C|2472
*
5HCQ|1|2A|G|2500
5HCQ|1|2A|G|2501
5HCQ|1|2A|U|2502
5HCQ|1|2A|U|2503
5HCQ|1|2A|U|2504

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2Q

50S ribosomal protein L16

Chain 2z

Oncocin d15-19