IL_5NDJ_206

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

CAAAC*GGUAG

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_206 not in the Motif Atlas

Homologous match to IL_4LFB_033

Geometric discrepancy: 0.0721

The information below is about IL_4LFB_033

Detailed Annotation

tSH-tHW-tHS

Broad Annotation

No text annotation

Motif group

IL_17136.7

Basepair signature

cWW-tSH-tHW-tHS-cWW

Number of instances in this motif group

14

Unit IDs

5NDJ|1|1G|C|1408
5NDJ|1|1G|A|1409
5NDJ|1|1G|A|1410
5NDJ|1|1G|A|1411
5NDJ|1|1G|C|1412
*
5NDJ|1|1G|G|1428
5NDJ|1|1G|G|1429
5NDJ|1|1G|U|1430
5NDJ|1|1G|A|1431
5NDJ|1|1G|G|1432

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain 14

Large subunit ribosomal RNA; LSU rRNA

Chain 2A

30S ribosomal protein S11