J3_5NDJ_017

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

CAG*CGAAC*GAUG

Length

12 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_017 not in the Motif Atlas

Homologous match to J3_7RQB_005

Geometric discrepancy: 0.054

The information below is about J3_7RQB_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_44724.4

Basepair signature

cWW-tSH-F-cWW-tHS-cWW-F

Number of instances in this motif group

6

Unit IDs

5NDJ|1|14|C|747
5NDJ|1|14|A|748
5NDJ|1|14|G|749
*
5NDJ|1|14|C|781
5NDJ|1|14|G|782
5NDJ|1|14|A|783
5NDJ|1|14|A|784
5NDJ|1|14|C|785
*
5NDJ|1|14|G|809
5NDJ|1|14|A|810
5NDJ|1|14|U|811
5NDJ|1|14|G|812

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L2