J4_5NDK_006

3D structure

PDB id

5NDK (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA

Experimental method

X-RAY DIFFRACTION

Resolution

2.95 Å

Loop

Sequence

CGAG*CGUAG*CGAG*CGCAAACGGCCCGCACGCGGGCCGAAAAG

Length

42 nucleotides

Bulged bases

5NDK|1|14|A|681, 5NDK|1|14|C|690, 5NDK|1|14|G|693, 5NDK|1|14|G|696, 5NDK|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

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