IL_5NDJ_279

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

UGAAG*CGUAG

Length

10 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_279 not in the Motif Atlas

Homologous match to IL_7RQB_053

Geometric discrepancy: 0.1896

The information below is about IL_7RQB_053

Detailed Annotation

tSH-tHW-tHS

Broad Annotation

No text annotation

Motif group

IL_17136.1

Basepair signature

cWW-tSH-tHW-tHS-cWW

Number of instances in this motif group

24

Unit IDs

5NDJ|1|1H|U|1406
5NDJ|1|1H|G|1407
5NDJ|1|1H|A|1408
5NDJ|1|1H|A|1409
5NDJ|1|1H|G|1410
*
5NDJ|1|1H|C|1419
5NDJ|1|1H|G|1420
5NDJ|1|1H|U|1421
5NDJ|1|1H|A|1422
5NDJ|1|1H|G|1423

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 11

50S ribosomal protein L2

Chain J8

50S ribosomal protein L28

Chain P8

50S ribosomal protein L34