J7_5HCQ_004

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

CGAAAU*AG*UGAG*CGAGCGC*GAGAC*GG*CGGUAG

Length

32 nucleotides

Bulged bases

5HCQ|1|2A|A|989, 5HCQ|1|2A|C|1019

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|C|863
5HCQ|1|2A|G|864
5HCQ|1|2A|A|865
5HCQ|1|2A|A|866
5HCQ|1|2A|A|867
5HCQ|1|2A|U|868
*
5HCQ|1|2A|A|881
5HCQ|1|2A|G|882
*
5HCQ|1|2A|U|987
5HCQ|1|2A|G|988
5HCQ|1|2A|A|989
5HCQ|1|2A|G|990
*
5HCQ|1|2A|C|1015
5HCQ|1|2A|G|1016
5HCQ|1|2A|A|1017
5HCQ|1|2A|G|1018
5HCQ|1|2A|C|1019
5HCQ|1|2A|G|1020
5HCQ|1|2A|C|1021
*
5HCQ|1|2A|G|1032
5HCQ|1|2A|A|1033
5HCQ|1|2A|G|1034
5HCQ|1|2A|A|1035
5HCQ|1|2A|C|1036
*
5HCQ|1|2A|G|1208
5HCQ|1|2A|G|1209
*
5HCQ|1|2A|C|1229
5HCQ|1|2A|G|1230
5HCQ|1|2A|G|1231
5HCQ|1|2A|U|1232
5HCQ|1|2A|A|1233
5HCQ|1|2A|G|1234

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 23

50S ribosomal protein L30

Chain 28

50S ribosomal protein L35

Chain 2B

5S ribosomal RNA; 5S rRNA

Chain 2P

50S ribosomal protein L15

Chain 2U

50S ribosomal protein L20

Chain 2V

50S ribosomal protein L21