IL_5NDJ_048

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

CUGC*GAGGAAG

Length

11 nucleotides

Bulged bases

None detected

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_048 not in the Motif Atlas

Homologous match to IL_4LFB_050

Geometric discrepancy: 0.2776

The information below is about IL_4LFB_050

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_42032.1

Basepair signature

cWW-cSH-cWW-tWH-L-cWW-L-L

Number of instances in this motif group

2

Unit IDs

5NDJ|1|13|C|1786
5NDJ|1|13|U|1787
5NDJ|1|13|G|1788
5NDJ|1|13|C|1789
*
5NDJ|1|13|G|1802
5NDJ|1|13|A|1803
5NDJ|1|13|G|1804
5NDJ|1|13|G|1805
5NDJ|1|13|A|1806
5NDJ|1|13|A|1807
5NDJ|1|13|G|1808

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 1E

30S ribosomal protein S2

Chain 8E

30S ribosomal protein S9