IL_5HD1_083

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

CAG*CGGAG

Length

8 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_083 not in the Motif Atlas

Geometric match to IL_7RQB_088

Geometric discrepancy: 0.0753

The information below is about IL_7RQB_088

Detailed Annotation

Isolated tHS basepair with bulges

Broad Annotation

No text annotation

Motif group

IL_38958.7

Basepair signature

cWW-tHS-cWW

Number of instances in this motif group

15

Unit IDs

5HD1|1|1A|C|2308
5HD1|1|1A|A|2309
5HD1|1|1A|G|2310
*
5HD1|1|1A|C|2328
5HD1|1|1A|G|2329
5HD1|1|1A|G|2330
5HD1|1|1A|A|2331
5HD1|1|1A|G|2332

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1B

5S ribosomal RNA; 5S rRNA

Chain 1G

50S ribosomal protein L5

Chain 1S

50S ribosomal protein L18