J4_5HCR_012

3D structure

PDB id

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

Description

Crystal structure of antimicrobial peptide Oncocin 10wt bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GAG*CAUGUG*CAAAG*CGC

Length

17 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

J4_5HCR_012 not in the Motif Atlas

Homologous match to J4_4LFB_002

Geometric discrepancy: 0.1343

The information below is about J4_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_88771.1

Basepair signature

cWW-tSS-cWW-tSS-cWW-cWW-tWH-tWH-cSH-cWW

Number of instances in this motif group

1

Unit IDs

5HCR|1|1a|G|137
5HCR|1|1a|A|138
5HCR|1|1a|G|139
*
5HCR|1|1a|C|173
5HCR|1|1a|A|174
5HCR|1|1a|U|175
5HCR|1|1a|G|176
5HCR|1|1a|U|177
5HCR|1|1a|G|178
*
5HCR|1|1a|C|201
5HCR|1|1a|A|202
5HCR|1|1a|A|203
5HCR|1|1a|A|204
5HCR|1|1a|G|205
*
5HCR|1|1a|C|215
5HCR|1|1a|G|216
5HCR|1|1a|C|217

Current chains

Chain 1a

16S Ribosomal RNA

Nearby chains

Chain 1t

30S ribosomal protein S20