IL_5HD1_090

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

CCGAG*CGGCG

Length

10 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_090 not in the Motif Atlas

Homologous match to IL_7RQB_095

Geometric discrepancy: 0.0503

The information below is about IL_7RQB_095

Detailed Annotation

Triple sheared

Broad Annotation

No text annotation

Motif group

IL_56467.8

Basepair signature

cWW-tSH-tSH-tHS-cWW

Number of instances in this motif group

29

Unit IDs

5HD1|1|1A|C|2477
5HD1|1|1A|C|2478
5HD1|1|1A|G|2479
5HD1|1|1A|A|2480
5HD1|1|1A|G|2481
*
5HD1|1|1A|C|2491
5HD1|1|1A|G|2492
5HD1|1|1A|G|2493
5HD1|1|1A|C|2494
5HD1|1|1A|G|2495

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L36

Chain 1Q

50S ribosomal protein L16

Chain 1Z

50S ribosomal protein L25