J7_5HCQ_003

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

AUGGUAAG*UACAAGC*GAACUG*CUAC*GCGCAG*CC*GU

Length

35 nucleotides

Bulged bases

5HCQ|1|2A|G|554, 5HCQ|1|2A|C|2042

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|2A|A|7
5HCQ|1|2A|U|8
5HCQ|1|2A|G|9
5HCQ|1|2A|G|10
5HCQ|1|2A|U|11
5HCQ|1|2A|A|12
5HCQ|1|2A|A|13
5HCQ|1|2A|G|14
*
5HCQ|1|2A|U|549
5HCQ|1|2A|A|550
5HCQ|1|2A|C|551
5HCQ|1|2A|A|552
5HCQ|1|2A|A|553
5HCQ|1|2A|G|554
5HCQ|1|2A|C|555
*
5HCQ|1|2A|G|2039
5HCQ|1|2A|A|2040
5HCQ|1|2A|A|2041
5HCQ|1|2A|C|2042
5HCQ|1|2A|U|2043
5HCQ|1|2A|G|2044
*
5HCQ|1|2A|C|2061
5HCQ|1|2A|U|2062
5HCQ|1|2A|A|2063
5HCQ|1|2A|C|2064
*
5HCQ|1|2A|G|2636
5HCQ|1|2A|C|2637
5HCQ|1|2A|G|2638
5HCQ|1|2A|C|2639
5HCQ|1|2A|A|2640
5HCQ|1|2A|G|2641
*
5HCQ|1|2A|C|2800
5HCQ|1|2A|C|2801
*
5HCQ|1|2A|G|2902
5HCQ|1|2A|U|2903

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L32

Chain 2E

50S ribosomal protein L3

Chain 2N

50S ribosomal protein L13

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22