J4_5HCP_025

3D structure

PDB id

5HCP (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of antimicrobial peptide Metalnikowin bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.89 Å

Loop

Sequence

GAGUAACG*UC*GUAG*CC

Length

16 nucleotides

Bulged bases

5HCP|1|2a|C|115

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

J4_5HCP_025 not in the Motif Atlas

Homologous match to J4_4LFB_001

Geometric discrepancy: 0.0702

The information below is about J4_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_90044.1

Basepair signature

cWW-F-cWW-F-F-F-tHW-F-cWW-cWW

Number of instances in this motif group

2

Unit IDs

5HCP|1|2a|G|109
5HCP|1|2a|A|110
5HCP|1|2a|G|111
5HCP|1|2a|U|112
5HCP|1|2a|A|113
5HCP|1|2a|A|114
5HCP|1|2a|C|115
5HCP|1|2a|G|116
*
5HCP|1|2a|U|235
5HCP|1|2a|C|236
*
5HCP|1|2a|G|282
5HCP|1|2a|U|283
5HCP|1|2a|A|284
5HCP|1|2a|G|285
*
5HCP|1|2a|C|307
5HCP|1|2a|C|308

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2p

30S ribosomal protein S16

Chain 2q

30S ribosomal protein S17