J5_5HCR_010

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

CGAUGAAG*CGAAUG*CG*CAC*GGG

Length

22 nucleotides

Bulged bases

5HCR|1|2A|U|48

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

J5_5HCR_010 not in the Motif Atlas

Homologous match to J5_9DFE_001

Geometric discrepancy: 0.0537

The information below is about J5_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_27223.1

Basepair signature

cWW-cWW-cWW-cWW-F-cWW-F-tSH-F-tHH-tHS-cWW

Number of instances in this motif group

7

Unit IDs

5HCR|1|2A|C|45
5HCR|1|2A|G|46
5HCR|1|2A|A|47
5HCR|1|2A|U|48
5HCR|1|2A|G|49
5HCR|1|2A|A|50
5HCR|1|2A|A|51
5HCR|1|2A|G|52
*
5HCR|1|2A|C|113
5HCR|1|2A|G|114
5HCR|1|2A|A|115
5HCR|1|2A|A|116
5HCR|1|2A|U|117
5HCR|1|2A|G|118
*
5HCR|1|2A|C|127
5HCR|1|2A|G|128
*
5HCR|1|2A|C|147
5HCR|1|2A|A|148
5HCR|1|2A|C|149
*
5HCR|1|2A|G|164
5HCR|1|2A|G|165
5HCR|1|2A|G|166

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2X

50S ribosomal protein L23