J3_5NDJ_008

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

CUUG*CAG*CUUACG

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

J3_5NDJ_008 not in the Motif Atlas

Homologous match to J3_5J7L_007

Geometric discrepancy: 0.1604

The information below is about J3_5J7L_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_82572.1

Basepair signature

cWW-tSH-tWW-F-cWW-tHW-F-F-cWW

Number of instances in this motif group

2

Unit IDs

5NDJ|1|13|C|1613
5NDJ|1|13|U|1614
5NDJ|1|13|U|1615
5NDJ|1|13|G|1616
*
5NDJ|1|13|C|1673
5NDJ|1|13|A|1674
5NDJ|1|13|G|1675
*
5NDJ|1|13|C|1837
5NDJ|1|13|U|1838
5NDJ|1|13|U|1839
5NDJ|1|13|A|1840
5NDJ|1|13|C|1841
5NDJ|1|13|G|1842

Current chains

Chain 13

16S ribosomal RNA

Nearby chains

Chain 5I

30S ribosomal protein S14 type Z