IL_5NDJ_294

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

CGUAAC*GGAGAAG

Length

13 nucleotides

Bulged bases

5NDJ|1|1H|G|1749

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_294 not in the Motif Atlas

Homologous match to IL_5J7L_308

Geometric discrepancy: 0.1145

The information below is about IL_5J7L_308

Detailed Annotation

tSH-tSH-tHH-tHS

Broad Annotation

No text annotation

Motif group

IL_47346.2

Basepair signature

cWW-tSH-L-R-tHH-tHS-cWW

Number of instances in this motif group

7

Unit IDs

5NDJ|1|1H|C|1736
5NDJ|1|1H|G|1737
5NDJ|1|1H|U|1738
5NDJ|1|1H|A|1739
5NDJ|1|1H|A|1740
5NDJ|1|1H|C|1741
*
5NDJ|1|1H|G|1746
5NDJ|1|1H|G|1747
5NDJ|1|1H|A|1748
5NDJ|1|1H|G|1749
5NDJ|1|1H|A|1750
5NDJ|1|1H|A|1751
5NDJ|1|1H|G|1752

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 11

50S ribosomal protein L2

Chain 13

Small subunit ribosomal RNA; SSU rRNA