IL_5NDJ_341

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

GACAAC*GCUAAUC

Length

13 nucleotides

Bulged bases

5NDJ|1|13|U|813

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_341 not in the Motif Atlas

Homologous match to IL_4LFB_009

Geometric discrepancy: 0.1385

The information below is about IL_4LFB_009

Detailed Annotation

tWH-tWH-tHW-tHW

Broad Annotation

No text annotation

Motif group

IL_12745.1

Basepair signature

cWW-tWH-tWH-tHW-tHW-cWW

Number of instances in this motif group

1

Unit IDs

5NDJ|1|13|G|788
5NDJ|1|13|A|789
5NDJ|1|13|C|790
5NDJ|1|13|A|791
5NDJ|1|13|A|792
5NDJ|1|13|C|793
*
5NDJ|1|13|G|808
5NDJ|1|13|C|809
5NDJ|1|13|U|810
5NDJ|1|13|A|811
5NDJ|1|13|A|812
5NDJ|1|13|U|813
5NDJ|1|13|C|814

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain BI

30S ribosomal protein S20