J4_5HD1_012

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

GAAGAGGG*CCCAUGUG*CAAAG*CGCUUC

Length

27 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

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|1a|G|134
5HD1|1|1a|A|135
5HD1|1|1a|A|136
5HD1|1|1a|G|137
5HD1|1|1a|A|138
5HD1|1|1a|G|139
5HD1|1|1a|G|140
5HD1|1|1a|G|141
*
5HD1|1|1a|C|171
5HD1|1|1a|C|172
5HD1|1|1a|C|173
5HD1|1|1a|A|174
5HD1|1|1a|U|175
5HD1|1|1a|G|176
5HD1|1|1a|U|177
5HD1|1|1a|G|178
*
5HD1|1|1a|C|201
5HD1|1|1a|A|202
5HD1|1|1a|A|203
5HD1|1|1a|A|204
5HD1|1|1a|G|205
*
5HD1|1|1a|C|215
5HD1|1|1a|G|216
5HD1|1|1a|C|217
5HD1|1|1a|U|218
5HD1|1|1a|U|219
5HD1|1|1a|C|220

Current chains

Chain 1a

16S Ribosomal RNA

Nearby chains

Chain 1t

30S ribosomal protein S20