J3_5HCR_052

3D structure

PDB id

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

Description

Crystal structure of antimicrobial peptide Oncocin 10wt bound to the Thermus thermophilus 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

5HCR|1|2A|U|528, 5HCR|1|2A|G|532

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_5HCR_052 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0544

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

5HCR|1|2A|G|29
5HCR|1|2A|C|30
*
5HCR|1|2A|G|499
5HCR|1|2A|U|500
5HCR|1|2A|G|501
5HCR|1|2A|A|502
5HCR|1|2A|A|503
5HCR|1|2A|A|504
5HCR|1|2A|A|505
5HCR|1|2A|G|506
5HCR|1|2A|A|507
5HCR|1|2A|A|508
5HCR|1|2A|C|509
*
5HCR|1|2A|G|520
5HCR|1|2A|A|521
5HCR|1|2A|G|522
5HCR|1|2A|U|523
5HCR|1|2A|G|524
5HCR|1|2A|A|525
5HCR|1|2A|A|526
5HCR|1|2A|A|527
5HCR|1|2A|U|528
5HCR|1|2A|A|529
5HCR|1|2A|G|530
5HCR|1|2A|A|531
5HCR|1|2A|G|532
5HCR|1|2A|C|533
5HCR|1|2A|C|534

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