IL_5NDJ_053

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

CGGAUU*AUGAAG

Length

12 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_053 not in the Motif Atlas

Homologous match to IL_4LFB_055

Geometric discrepancy: 0.1274

The information below is about IL_4LFB_055

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_57885.1

Basepair signature

cWW-tSH-tSH-tHS-cWW-cWW

Number of instances in this motif group

8

Unit IDs

5NDJ|1|13|C|1930
5NDJ|1|13|G|1931
5NDJ|1|13|G|1932
5NDJ|1|13|A|1933
5NDJ|1|13|U|1934
5NDJ|1|13|U|1935
*
5NDJ|1|13|A|1956
5NDJ|1|13|U|1957
5NDJ|1|13|G|1958
5NDJ|1|13|A|1959
5NDJ|1|13|A|1960
5NDJ|1|13|G|1961

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 1F

30S ribosomal protein Thx

Chain 4I

30S ribosomal protein S13