IL_5NDJ_306

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

GUG*CC

Length

5 nucleotides

Bulged bases

5NDJ|1|1H|U|2093

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_306 not in the Motif Atlas

Homologous match to IL_7RQB_080

Geometric discrepancy: 0.0883

The information below is about IL_7RQB_080

Detailed Annotation

Single bulged U

Broad Annotation

No text annotation

Motif group

IL_83039.16

Basepair signature

cWW-L-cWW

Number of instances in this motif group

116

Unit IDs

5NDJ|1|1H|G|2092
5NDJ|1|1H|U|2093
5NDJ|1|1H|G|2094
*
5NDJ|1|1H|C|2457
5NDJ|1|1H|C|2458

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 31

50S ribosomal protein L4

Chain 78

50S ribosomal protein L15