J3_5NDJ_016

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

CGAGCUA*UAG*CGAG

Length

14 nucleotides

Bulged bases

5NDJ|1|14|G|735, 5NDJ|1|14|G|841

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

J3_5NDJ_016 not in the Motif Atlas

Homologous match to J3_7A0S_004

Geometric discrepancy: 0.0928

The information below is about J3_7A0S_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_64189.2

Basepair signature

cWW-tWH-cWW-tSW-F-F-cWW

Number of instances in this motif group

7

Unit IDs

5NDJ|1|14|C|732
5NDJ|1|14|G|733
5NDJ|1|14|A|734
5NDJ|1|14|G|735
5NDJ|1|14|C|736
5NDJ|1|14|U|737
5NDJ|1|14|A|738
*
5NDJ|1|14|U|822
5NDJ|1|14|A|823
5NDJ|1|14|G|824
*
5NDJ|1|14|C|840
5NDJ|1|14|G|841
5NDJ|1|14|A|842
5NDJ|1|14|G|843

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L2

Chain L5

50S ribosomal protein L34