IL_5NDJ_302

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

GC*GCAC

Length

6 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_302 not in the Motif Atlas

Geometric match to IL_7RQB_076

Geometric discrepancy: 0.054

The information below is about IL_7RQB_076

Detailed Annotation

Bulged stacked bases

Broad Annotation

Bulged stacked bases

Motif group

IL_59677.2

Basepair signature

cWW-cWW

Number of instances in this motif group

19

Unit IDs

5NDJ|1|1H|G|1958
5NDJ|1|1H|C|1959
*
5NDJ|1|1H|G|1989
5NDJ|1|1H|C|1990
5NDJ|1|1H|A|1991
5NDJ|1|1H|C|1992

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain X1

Transfer RNA; tRNA