J5_5NDW_009

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

ACUUUG*UUUCCU*ACUUU*AUAGAAUAGGA*UAAUGAU

Length

35 nucleotides

Bulged bases

5NDW|1|2|U|638, 5NDW|1|2|U|639, 5NDW|1|2|C|696, 5NDW|1|2|C|697, 5NDW|1|2|U|813, 5NDW|1|2|G|815, 5NDW|1|2|A|856

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

5NDW|1|2|A|636
5NDW|1|2|C|637
5NDW|1|2|U|638
5NDW|1|2|U|639
5NDW|1|2|U|640
5NDW|1|2|G|641
*
5NDW|1|2|U|693
5NDW|1|2|U|694
5NDW|1|2|U|695
5NDW|1|2|C|696
5NDW|1|2|C|697
5NDW|1|2|U|698
*
5NDW|1|2|A|740
5NDW|1|2|C|741
5NDW|1|2|U|742
5NDW|1|2|U|743
5NDW|1|2|U|744
*
5NDW|1|2|A|807
5NDW|1|2|U|808
5NDW|1|2|A|809
5NDW|1|2|G|810
5NDW|1|2|A|811
5NDW|1|2|A|812
5NDW|1|2|U|813
5NDW|1|2|A|814
5NDW|1|2|G|815
5NDW|1|2|G|816
5NDW|1|2|A|817
*
5NDW|1|2|U|854
5NDW|1|2|A|855
5NDW|1|2|A|856
5NDW|1|2|U|857
5NDW|1|2|G|858
5NDW|1|2|A|859
5NDW|1|2|U|860

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C1

40S ribosomal protein S11-A

Chain C3

40S ribosomal protein S13

Chain D2

40S ribosomal protein S22-A

Chain M9

60S ribosomal protein L19-A

Chain S7

40S ribosomal protein S7-A