IL_5NDJ_124

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

ACUCUG*CUGU

Length

10 nucleotides

Bulged bases

5NDJ|1|14|G|2017

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_124 not in the Motif Atlas

Geometric match to IL_7RQB_067

Geometric discrepancy: 0.0611

The information below is about IL_7RQB_067

Detailed Annotation

Intercalated tWH

Broad Annotation

Intercalated tWH

Motif group

IL_76273.1

Basepair signature

cWW-L-R-cWW

Number of instances in this motif group

14

Unit IDs

5NDJ|1|14|A|1719
5NDJ|1|14|C|1720
5NDJ|1|14|U|1721
5NDJ|1|14|C|1722
5NDJ|1|14|U|1723
5NDJ|1|14|G|1724
*
5NDJ|1|14|C|2015
5NDJ|1|14|U|2016
5NDJ|1|14|G|2017
5NDJ|1|14|U|2018

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L14

Chain 29

50S ribosomal protein L3