IL_5HD1_322

3D structure

PDB id

5HD1 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

GAGUAG*CGCAGAUAC

Length

15 nucleotides

Bulged bases

5HD1|1|2a|A|686

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_5HD1_322 not in the Motif Atlas

Homologous match to IL_4LFB_031

Geometric discrepancy: 0.1099

The information below is about IL_4LFB_031

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_95727.1

Basepair signature

cWW-L-tSH-L-tHW-tHS-R-cWW-L

Number of instances in this motif group

1

Unit IDs

5HD1|1|2a|G|667
5HD1|1|2a|A|668
5HD1|1|2a|G|669
5HD1|1|2a|U|670
5HD1|1|2a|A|671
5HD1|1|2a|G|672
*
5HD1|1|2a|C|683
5HD1|1|2a|G|684
5HD1|1|2a|C|685
5HD1|1|2a|A|686
5HD1|1|2a|G|687
5HD1|1|2a|A|688
5HD1|1|2a|U|689
5HD1|1|2a|A|690
5HD1|1|2a|C|691

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2A

Large subunit ribosomal RNA; LSU rRNA

Chain 2k

30S ribosomal protein S11