IL_5NDJ_264

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

CUAAG*CGAAG

Length

10 nucleotides

Bulged bases

5NDJ|1|1H|A|1205

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_264 not in the Motif Atlas

Homologous match to IL_7RQB_036

Geometric discrepancy: 0.0551

The information below is about IL_7RQB_036

Detailed Annotation

UAA/GAN

Broad Annotation

No text annotation

Motif group

IL_89002.2

Basepair signature

cWW-tWH-L-tHS-cWW

Number of instances in this motif group

20

Unit IDs

5NDJ|1|1H|C|1046
5NDJ|1|1H|U|1047
5NDJ|1|1H|A|1048
5NDJ|1|1H|A|1049
5NDJ|1|1H|G|1050
*
5NDJ|1|1H|C|1202
5NDJ|1|1H|G|1203
5NDJ|1|1H|A|1204
5NDJ|1|1H|A|1205
5NDJ|1|1H|G|1206

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 16

5S ribosomal RNA; 5S rRNA

Chain C8

50S ribosomal protein L20

Chain D8

50S ribosomal protein L21

Chain L8

50S ribosomal protein L30