J4_5HCP_015

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

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

5HCP|1|2A|U|431

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_015 not in the Motif Atlas

Homologous match to J4_9DFE_001

Geometric discrepancy: 0.0777

The information below is about J4_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_94698.1

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-cWW

Number of instances in this motif group

10

Unit IDs

5HCP|1|2A|C|256
5HCP|1|2A|U|257
*
5HCP|1|2A|G|396
5HCP|1|2A|A|397
5HCP|1|2A|G|398
5HCP|1|2A|U|399
5HCP|1|2A|A|400
5HCP|1|2A|C|401
*
5HCP|1|2A|G|425
5HCP|1|2A|G|426
5HCP|1|2A|A|427
5HCP|1|2A|A|428
5HCP|1|2A|U|429
5HCP|1|2A|C|430
5HCP|1|2A|U|431
5HCP|1|2A|G|432
*
5HCP|1|2A|U|447
5HCP|1|2A|A|448
5HCP|1|2A|A|449
5HCP|1|2A|G|450

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L28

Chain 2I

50S ribosomal protein L9