J3_5HD1_063

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

GCCUAAG*UAGGAAUCUUC*GAGC

Length

22 nucleotides

Bulged bases

5HD1|1|2a|C|49, 5HD1|1|2a|A|51, 5HD1|1|2a|A|52, 5HD1|1|2a|U|364

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5HD1|1|2a|G|47
5HD1|1|2a|C|48
5HD1|1|2a|C|49
5HD1|1|2a|U|50
5HD1|1|2a|A|51
5HD1|1|2a|A|52
5HD1|1|2a|G|53
*
5HD1|1|2a|U|355
5HD1|1|2a|A|356
5HD1|1|2a|G|357
5HD1|1|2a|G|358
5HD1|1|2a|A|359
5HD1|1|2a|A|360
5HD1|1|2a|U|361
5HD1|1|2a|C|362
5HD1|1|2a|U|363
5HD1|1|2a|U|364
5HD1|1|2a|C|365
*
5HD1|1|2a|G|388
5HD1|1|2a|A|389
5HD1|1|2a|G|390
5HD1|1|2a|C|391

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2l

30S ribosomal protein S12

Chain 2p

30S ribosomal protein S16