J5_5HCP_001

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

CGAUGAAG*CGAAUG*CG*CAC*GGG

Length

22 nucleotides

Bulged bases

5HCP|1|1A|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_5HCP_001 not in the Motif Atlas

Homologous match to J5_9DFE_001

Geometric discrepancy: 0.0454

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

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

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 17

50S ribosomal protein L34

Chain 1X

50S ribosomal protein L23