IL_5NDJ_331

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

GAUAAC*GGAAGC

Length

12 nucleotides

Bulged bases

5NDJ|1|1H|A|2781

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_331 not in the Motif Atlas

Homologous match to IL_7RQB_107

Geometric discrepancy: 0.068

The information below is about IL_7RQB_107

Detailed Annotation

UAA/GAN with extra cWW

Broad Annotation

No text annotation

Motif group

IL_49767.5

Basepair signature

cWW-cWW-tWH-L-tHS-cWW

Number of instances in this motif group

5

Unit IDs

5NDJ|1|1H|G|2753
5NDJ|1|1H|A|2754
5NDJ|1|1H|U|2755
5NDJ|1|1H|A|2756
5NDJ|1|1H|A|2757
5NDJ|1|1H|C|2758
*
5NDJ|1|1H|G|2778
5NDJ|1|1H|G|2779
5NDJ|1|1H|A|2780
5NDJ|1|1H|A|2781
5NDJ|1|1H|G|2782
5NDJ|1|1H|C|2783

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 51

50S ribosomal protein L6

Chain 58

50S ribosomal protein L13