J4_5NDJ_006

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

CGAG*CGUAG*CGAG*CGCAAACGGCCCGCACGCGGGCCGAAAAG

Length

42 nucleotides

Bulged bases

5NDJ|1|14|A|681, 5NDJ|1|14|C|690, 5NDJ|1|14|G|693, 5NDJ|1|14|G|697

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5NDJ|1|14|C|626
5NDJ|1|14|G|627
5NDJ|1|14|A|628
5NDJ|1|14|G|629
*
5NDJ|1|14|C|651
5NDJ|1|14|G|652
5NDJ|1|14|U|653
5NDJ|1|14|A|654
5NDJ|1|14|G|655
*
5NDJ|1|14|C|662
5NDJ|1|14|G|663
5NDJ|1|14|A|664
5NDJ|1|14|G|665
*
5NDJ|1|14|C|677
5NDJ|1|14|G|678
5NDJ|1|14|C|679
5NDJ|1|14|A|680
5NDJ|1|14|A|681
5NDJ|1|14|A|682
5NDJ|1|14|C|683
5NDJ|1|14|G|684
5NDJ|1|14|G|685
5NDJ|1|14|C|686
5NDJ|1|14|C|687
5NDJ|1|14|C|688
5NDJ|1|14|G|689
5NDJ|1|14|C|690
5NDJ|1|14|A|691
5NDJ|1|14|C|692
5NDJ|1|14|G|693
5NDJ|1|14|C|694
5NDJ|1|14|G|695
5NDJ|1|14|G|696
5NDJ|1|14|G|697
5NDJ|1|14|C|698
5NDJ|1|14|C|699
5NDJ|1|14|G|700
5NDJ|1|14|A|701
5NDJ|1|14|A|702
5NDJ|1|14|A|703
5NDJ|1|14|A|704
5NDJ|1|14|G|705

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 35

50S ribosomal protein L15

Chain 39

50S ribosomal protein L4

Chain M5

50S ribosomal protein L35