IL_5HCQ_172

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

CGAAG*CGAG

Length

9 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_172 not in the Motif Atlas

Homologous match to IL_4LFB_062

Geometric discrepancy: 0.0874

The information below is about IL_4LFB_062

Detailed Annotation

UAA/GAN variation

Broad Annotation

UAA/GAN variation

Motif group

IL_77691.5

Basepair signature

cWW-tSH-L-R-L-cWW

Number of instances in this motif group

7

Unit IDs

5HCQ|1|1a|C|1414
5HCQ|1|1a|G|1415
5HCQ|1|1a|A|1416
5HCQ|1|1a|A|1417
5HCQ|1|1a|G|1418
*
5HCQ|1|1a|C|1444
5HCQ|1|1a|G|1445
5HCQ|1|1a|A|1446
5HCQ|1|1a|G|1447

Current chains

Chain 1a

16S Ribosomal RNA

Nearby chains

Chain 1A

Large subunit ribosomal RNA; LSU rRNA

Chain 1T

50S ribosomal protein L19

Chain 1t

30S ribosomal protein S20