J3_5NDJ_015

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

UAAAC*GGGUCGUG*CG

Length

15 nucleotides

Bulged bases

5NDJ|1|14|U|289

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_015 not in the Motif Atlas

Homologous match to J3_7RQB_003

Geometric discrepancy: 0.0694

The information below is about J3_7RQB_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_97921.1

Basepair signature

cWW-F-F-tSH-tWH-F-cWW-F-cWW

Number of instances in this motif group

2

Unit IDs

5NDJ|1|14|U|259
5NDJ|1|14|A|260
5NDJ|1|14|A|261
5NDJ|1|14|A|262
5NDJ|1|14|C|263
*
5NDJ|1|14|G|283
5NDJ|1|14|G|284
5NDJ|1|14|G|285
5NDJ|1|14|U|286
5NDJ|1|14|C|287
5NDJ|1|14|G|288
5NDJ|1|14|U|289
5NDJ|1|14|G|290
*
5NDJ|1|14|C|397
5NDJ|1|14|G|398

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 69

50S ribosomal protein L9