J5_5NDV_010

3D structure

PDB id

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

Description

Crystal structure of Paromomycin bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

ACUUUG*UUUCCU*ACUUU*AUAGAAUAGGA*UAAUGAU

Length

35 nucleotides

Bulged bases

5NDV|1|2|U|638, 5NDV|1|2|U|639, 5NDV|1|2|U|694, 5NDV|1|2|U|695, 5NDV|1|2|C|696, 5NDV|1|2|C|697, 5NDV|1|2|U|813, 5NDV|1|2|G|815, 5NDV|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

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