IL_5NDJ_362

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

GGAACUCUG*CUGUC

Length

14 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_362 not in the Motif Atlas

Homologous match to IL_9DFE_066

Geometric discrepancy: 0.046

The information below is about IL_9DFE_066

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_80252.1

Basepair signature

cWW-tSH-cWW-tHW-R-L-cWW-L-L-R

Number of instances in this motif group

10

Unit IDs

5NDJ|1|1H|G|1716
5NDJ|1|1H|G|1717
5NDJ|1|1H|A|1718
5NDJ|1|1H|A|1719
5NDJ|1|1H|C|1720
5NDJ|1|1H|U|1721
5NDJ|1|1H|C|1722
5NDJ|1|1H|U|1723
5NDJ|1|1H|G|1724
*
5NDJ|1|1H|C|2015
5NDJ|1|1H|U|2016
5NDJ|1|1H|G|2017
5NDJ|1|1H|U|2018
5NDJ|1|1H|C|2019

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L3

Chain 68

50S ribosomal protein L14