IL_5HD1_182

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

UGAGUAG*CGAAAG

Length

13 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_5HD1_182 not in the Motif Atlas

Homologous match to IL_7RQB_007

Geometric discrepancy: 0.0716

The information below is about IL_7RQB_007

Detailed Annotation

7x6 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_76042.2

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

9

Unit IDs

5HD1|1|2A|U|227
5HD1|1|2A|G|228
5HD1|1|2A|A|229
5HD1|1|2A|G|230
5HD1|1|2A|U|231
5HD1|1|2A|A|232
5HD1|1|2A|G|233
*
5HD1|1|2A|C|241
5HD1|1|2A|G|242
5HD1|1|2A|A|243
5HD1|1|2A|A|244
5HD1|1|2A|A|245
5HD1|1|2A|G|246

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 28

50S ribosomal protein L35

Chain 2P

50S ribosomal protein L15