IL_5NDJ_062

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

CGGGAG*CAG

Length

9 nucleotides

Bulged bases

5NDJ|1|13|G|2071

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_062 not in the Motif Atlas

Homologous match to IL_4LFB_064

Geometric discrepancy: 0.419

The information below is about IL_4LFB_064

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_49061.1

Basepair signature

cWW-L-R-L-cWW-L

Number of instances in this motif group

6

Unit IDs

5NDJ|1|13|C|2068
5NDJ|1|13|G|2069
5NDJ|1|13|G|2070
5NDJ|1|13|G|2071
5NDJ|1|13|A|2072
5NDJ|1|13|G|2073
*
5NDJ|1|13|C|2082
5NDJ|1|13|A|2083
5NDJ|1|13|G|2084

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 1H

Large subunit ribosomal RNA; LSU rRNA

Chain B8

50S ribosomal protein L19

Chain BI

30S ribosomal protein S20