J7_5NDJ_002

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

CGAAAU*AG*UGAG*CGAGCGC*GAGAC*GG*CGGUAG

Length

32 nucleotides

Bulged bases

5NDJ|1|14|A|992, 5NDJ|1|14|C|1022

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|866
5NDJ|1|14|G|867
5NDJ|1|14|A|868
5NDJ|1|14|A|869
5NDJ|1|14|A|870
5NDJ|1|14|U|871
*
5NDJ|1|14|A|884
5NDJ|1|14|G|885
*
5NDJ|1|14|U|990
5NDJ|1|14|G|991
5NDJ|1|14|A|992
5NDJ|1|14|G|993
*
5NDJ|1|14|C|1018
5NDJ|1|14|G|1019
5NDJ|1|14|A|1020
5NDJ|1|14|G|1021
5NDJ|1|14|C|1022
5NDJ|1|14|G|1023
5NDJ|1|14|C|1024
*
5NDJ|1|14|G|1035
5NDJ|1|14|A|1036
5NDJ|1|14|G|1037
5NDJ|1|14|A|1038
5NDJ|1|14|C|1039
*
5NDJ|1|14|G|1212
5NDJ|1|14|G|1213
*
5NDJ|1|14|C|1233
5NDJ|1|14|G|1234
5NDJ|1|14|G|1235
5NDJ|1|14|U|1236
5NDJ|1|14|A|1237
5NDJ|1|14|G|1238

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 1J

5S ribosomal RNA; 5S rRNA

Chain 35

50S ribosomal protein L15

Chain 85

50S ribosomal protein L20

Chain 95

50S ribosomal protein L21

Chain H5

50S ribosomal protein L30

Chain M5

50S ribosomal protein L35