J6_5HCQ_002

3D structure

PDB id

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

Description

Crystal structure of antimicrobial peptide Oncocin d15-19 bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

UUUA*UUUG*CG*CGCC*GCCUAGUGAACC*GAUCAACGGAUAAAA

Length

41 nucleotides

Bulged bases

5HCQ|1|1A|U|2097, 5HCQ|1|1A|A|2399, 5HCQ|1|1A|U|2401, 5HCQ|1|1A|G|2439, 5HCQ|1|1A|A|2441, 5HCQ|1|1A|U|2442

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5HCQ|1|1A|U|2095
5HCQ|1|1A|U|2096
5HCQ|1|1A|U|2097
5HCQ|1|1A|A|2098
*
5HCQ|1|1A|U|2254
5HCQ|1|1A|U|2255
5HCQ|1|1A|U|2256
5HCQ|1|1A|G|2257
*
5HCQ|1|1A|C|2269
5HCQ|1|1A|G|2270
*
5HCQ|1|1A|C|2292
5HCQ|1|1A|G|2293
5HCQ|1|1A|C|2294
5HCQ|1|1A|C|2295
*
5HCQ|1|1A|G|2395
5HCQ|1|1A|C|2396
5HCQ|1|1A|C|2397
5HCQ|1|1A|U|2398
5HCQ|1|1A|A|2399
5HCQ|1|1A|G|2400
5HCQ|1|1A|U|2401
5HCQ|1|1A|G|2402
5HCQ|1|1A|A|2403
5HCQ|1|1A|A|2404
5HCQ|1|1A|C|2405
5HCQ|1|1A|C|2406
*
5HCQ|1|1A|G|2432
5HCQ|1|1A|A|2433
5HCQ|1|1A|U|2434
5HCQ|1|1A|C|2435
5HCQ|1|1A|A|2436
5HCQ|1|1A|A|2437
5HCQ|1|1A|C|2438
5HCQ|1|1A|G|2439
5HCQ|1|1A|G|2440
5HCQ|1|1A|A|2441
5HCQ|1|1A|U|2442
5HCQ|1|1A|A|2443
5HCQ|1|1A|A|2444
5HCQ|1|1A|A|2445
5HCQ|1|1A|A|2446

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 10

50S ribosomal protein L27

Chain 11

50S ribosomal protein L28

Chain 16

50S ribosomal protein L33

Chain 18

50S ribosomal protein L35

Chain 1D

50S ribosomal protein L2

Chain 1P

50S ribosomal protein L15