IL_5NDJ_046

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking)

Experimental method

X-RAY DIFFRACTION

Resolution

3.15 Å

Loop

Sequence

GUUGC*GGCACUC

Length

12 nucleotides

Bulged bases

5NDJ|1|13|U|1753

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

IL_5NDJ_046 not in the Motif Atlas

Homologous match to IL_4LFB_048

Geometric discrepancy: 0.2048

The information below is about IL_4LFB_048

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_85222.1

Basepair signature

cWW-L-R-L-R-L-cWW-L-L

Number of instances in this motif group

1

Unit IDs

5NDJ|1|13|G|1752
5NDJ|1|13|U|1753
5NDJ|1|13|U|1754
5NDJ|1|13|G|1755
5NDJ|1|13|C|1756
*
5NDJ|1|13|G|1771
5NDJ|1|13|G|1772
5NDJ|1|13|C|1773
5NDJ|1|13|A|1774
5NDJ|1|13|C|1775
5NDJ|1|13|U|1776
5NDJ|1|13|C|1777

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 1I

30S ribosomal protein S10

Chain 8E

30S ribosomal protein S9