J3_5NDJ_066

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

UG*UGUU*GCAA

Length

10 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

J3_5NDJ_066 not in the Motif Atlas

Homologous match to J3_4LFB_017

Geometric discrepancy: 0.1227

The information below is about J3_4LFB_017

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_79369.1

Basepair signature

cWW-cWW-tSS-F-F-cWW-F

Number of instances in this motif group

1

Unit IDs

5NDJ|1|1G|U|1701
5NDJ|1|1G|G|1702
*
5NDJ|1|1G|U|1711
5NDJ|1|1G|G|1712
5NDJ|1|1G|U|1713
5NDJ|1|1G|U|1714
*
5NDJ|1|1G|G|1727
5NDJ|1|1G|C|1728
5NDJ|1|1G|A|1729
5NDJ|1|1G|A|1730

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain 12

30S ribosomal protein S2

Chain 42

30S ribosomal protein S5