IL_5HCQ_304

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

GGACG*CGGUAC

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_5HCQ_304 not in the Motif Atlas

Geometric match to IL_4LFB_018

Geometric discrepancy: 0.1356

The information below is about IL_4LFB_018

Detailed Annotation

6x5 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_88269.4

Basepair signature

cWW-tWW-cSH-tWH-tHS-cWW

Number of instances in this motif group

3

Unit IDs

5HCQ|1|2a|G|441
5HCQ|1|2a|G|442
5HCQ|1|2a|A|443
5HCQ|1|2a|C|444
5HCQ|1|2a|G|445
*
5HCQ|1|2a|C|468
5HCQ|1|2a|G|469
5HCQ|1|2a|G|470
5HCQ|1|2a|U|471
5HCQ|1|2a|A|472
5HCQ|1|2a|C|473

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4

Chain 2p

30S ribosomal protein S16