IL_5NDJ_014

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

UUC*GA

Length

5 nucleotides

Bulged bases

5NDJ|1|13|U|1009

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_014 not in the Motif Atlas

Geometric match to IL_4LFB_014

Geometric discrepancy: 0.1299

The information below is about IL_4LFB_014

Detailed Annotation

Single bulged U

Broad Annotation

No text annotation

Motif group

IL_97561.1

Basepair signature

cWW-L-cWW

Number of instances in this motif group

129

Unit IDs

5NDJ|1|13|U|1008
5NDJ|1|13|U|1009
5NDJ|1|13|C|1010
*
5NDJ|1|13|G|1033
5NDJ|1|13|A|1034

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 69

50S ribosomal protein L9

Chain 7I

30S ribosomal protein S16