IL_5HD1_223

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

CGAUGAAG*UGGAG

Length

13 nucleotides

Bulged bases

5HD1|1|2A|U|1255

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_223 not in the Motif Atlas

Homologous match to IL_7RQB_047

Geometric discrepancy: 0.0623

The information below is about IL_7RQB_047

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_70923.2

Basepair signature

cWW-tSS-tSH-L-tHS-tHS-cWW

Number of instances in this motif group

28

Unit IDs

5HD1|1|2A|C|1252
5HD1|1|2A|G|1253
5HD1|1|2A|A|1254
5HD1|1|2A|U|1255
5HD1|1|2A|G|1256
5HD1|1|2A|A|1257
5HD1|1|2A|A|1258
5HD1|1|2A|G|1259
*
5HD1|1|2A|U|1279
5HD1|1|2A|G|1280
5HD1|1|2A|G|1281
5HD1|1|2A|A|1282
5HD1|1|2A|G|1283

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2U

50S ribosomal protein L20