J3_5HCP_038

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

CGAAG*CGCCAGAGAG*CGUAG

Length

20 nucleotides

Bulged bases

5HCP|1|1A|G|344

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

J3_5HCP_038 not in the Motif Atlas

Homologous match to J3_9DFE_006

Geometric discrepancy: 0.0471

The information below is about J3_9DFE_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46299.2

Basepair signature

cWW-F-F-F-cHH-cWW-tHS-F-cWW-cSW-tHS-cWW

Number of instances in this motif group

3

Unit IDs

5HCP|1|1A|C|320
5HCP|1|1A|G|321
5HCP|1|1A|A|322
5HCP|1|1A|A|323
5HCP|1|1A|G|324
*
5HCP|1|1A|C|339
5HCP|1|1A|G|340
5HCP|1|1A|C|341
5HCP|1|1A|C|342
5HCP|1|1A|A|343
5HCP|1|1A|G|344
5HCP|1|1A|A|345
5HCP|1|1A|G|346
5HCP|1|1A|A|347
5HCP|1|1A|G|348
*
5HCP|1|1A|C|360
5HCP|1|1A|G|361
5HCP|1|1A|U|362
5HCP|1|1A|A|363
5HCP|1|1A|G|364

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1F

50S ribosomal protein L4

Chain 1Y

50S ribosomal protein L24