IL_5NDJ_327

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

CUAGUAC*GGACCG

Length

13 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_327 not in the Motif Atlas

Geometric match to IL_7RQB_103

Geometric discrepancy: 0.1385

The information below is about IL_7RQB_103

Detailed Annotation

Sarcin-Ricin target in LSU H95; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_16458.1

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-cWW

Number of instances in this motif group

7

Unit IDs

5NDJ|1|1H|C|2667
5NDJ|1|1H|U|2668
5NDJ|1|1H|A|2669
5NDJ|1|1H|G|2670
5NDJ|1|1H|U|2671
5NDJ|1|1H|A|2672
5NDJ|1|1H|C|2673
*
5NDJ|1|1H|G|2678
5NDJ|1|1H|G|2679
5NDJ|1|1H|A|2680
5NDJ|1|1H|C|2681
5NDJ|1|1H|C|2682
5NDJ|1|1H|G|2683

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 51

50S ribosomal protein L6