J3_4ZER_052

3D structure

PDB id

4ZER (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Onc112 antimicrobial peptide bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

4ZER|1|2A|U|504, 4ZER|1|2A|G|508

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_4ZER_052 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0524

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17917.1

Basepair signature

cWW-tWH-cSS-cWW-tSH-tHH-cWW-F-F-tWW-tSS-cSS-tWW-tSH-tWH-cSW-F-tHS-cWW-F

Number of instances in this motif group

9

Unit IDs

4ZER|1|2A|G|30
4ZER|1|2A|C|31
*
4ZER|1|2A|G|474
4ZER|1|2A|U|475
4ZER|1|2A|G|476
4ZER|1|2A|A|477
4ZER|1|2A|A|478
4ZER|1|2A|A|479
4ZER|1|2A|A|480
4ZER|1|2A|G|481
4ZER|1|2A|A|482
4ZER|1|2A|A|483
4ZER|1|2A|C|484
*
4ZER|1|2A|G|496
4ZER|1|2A|A|497
4ZER|1|2A|G|498
4ZER|1|2A|U|499
4ZER|1|2A|G|500
4ZER|1|2A|A|501
4ZER|1|2A|A|502
4ZER|1|2A|A|503
4ZER|1|2A|U|504
4ZER|1|2A|A|505
4ZER|1|2A|G|506
4ZER|1|2A|A|507
4ZER|1|2A|G|508
4ZER|1|2A|C|509
4ZER|1|2A|C|510

Current chains

Chain 2A

23s ribosomal RNA

Nearby chains

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22

Chain 2Y

50S ribosomal protein L24