IL_5HD1_377

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

CGAAGACAG*UCGAG

Length

14 nucleotides

Bulged bases

5HD1|1|2A|A|1091

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_377 not in the Motif Atlas

Homologous match to IL_5J7L_284

Geometric discrepancy: 0.2608

The information below is about IL_5J7L_284

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_99692.2

Basepair signature

cWW-tSS-tSH-L-R-R-L-cWW-L-L

Number of instances in this motif group

6

Unit IDs

5HD1|1|2A|C|1088
5HD1|1|2A|G|1089
5HD1|1|2A|A|1090
5HD1|1|2A|A|1091
5HD1|1|2A|G|1092
5HD1|1|2A|A|1093
5HD1|1|2A|C|1094
5HD1|1|2A|A|1095
5HD1|1|2A|G|1096
*
5HD1|1|2A|U|1153
5HD1|1|2A|C|1154
5HD1|1|2A|G|1155
5HD1|1|2A|A|1156
5HD1|1|2A|G|1157

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L36

Chain 2H

50S ribosomal protein L6