IL_5HD1_300

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

GACAAC*GCUAAUC

Length

13 nucleotides

Bulged bases

5HD1|1|2a|U|168

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_300 not in the Motif Atlas

Homologous match to IL_4LFB_009

Geometric discrepancy: 0.0898

The information below is about IL_4LFB_009

Detailed Annotation

tWH-tWH-tHW-tHW

Broad Annotation

No text annotation

Motif group

IL_00680.1

Basepair signature

cWW-L-R-tWH-L-R-L-cWW-cWW

Number of instances in this motif group

3

Unit IDs

5HD1|1|2a|G|143
5HD1|1|2a|A|144
5HD1|1|2a|C|145
5HD1|1|2a|A|146
5HD1|1|2a|A|147
5HD1|1|2a|C|148
*
5HD1|1|2a|G|163
5HD1|1|2a|C|164
5HD1|1|2a|U|165
5HD1|1|2a|A|166
5HD1|1|2a|A|167
5HD1|1|2a|U|168
5HD1|1|2a|C|169

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2t

30S ribosomal protein S20