J5_8S8E_005

3D structure

PDB id

8S8E (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-3.1)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.85 Å

Loop

Sequence

ACUUUG*UUUCCUUC*GGACUUU*AUGGAAUAGGA*UAAUGAU

Length

39 nucleotides

Bulged bases

8S8E|1|2|U|637, 8S8E|1|2|U|638, 8S8E|1|2|U|694, 8S8E|1|2|C|696, 8S8E|1|2|C|697, 8S8E|1|2|U|812, 8S8E|1|2|G|814, 8S8E|1|2|A|855

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

8S8E|1|2|A|635
8S8E|1|2|C|636
8S8E|1|2|U|637
8S8E|1|2|U|638
8S8E|1|2|U|639
8S8E|1|2|G|640
*
8S8E|1|2|U|693
8S8E|1|2|U|694
8S8E|1|2|U|695
8S8E|1|2|C|696
8S8E|1|2|C|697
8S8E|1|2|U|698
8S8E|1|2|U|699
8S8E|1|2|C|700
*
8S8E|1|2|G|738
8S8E|1|2|G|739
8S8E|1|2|A|740
8S8E|1|2|C|741
8S8E|1|2|U|742
8S8E|1|2|U|743
8S8E|1|2|U|744
*
8S8E|1|2|A|806
8S8E|1|2|U|807
8S8E|1|2|G|808
8S8E|1|2|G|809
8S8E|1|2|A|810
8S8E|1|2|A|811
8S8E|1|2|U|812
8S8E|1|2|A|813
8S8E|1|2|G|814
8S8E|1|2|G|815
8S8E|1|2|A|816
*
8S8E|1|2|U|853
8S8E|1|2|A|854
8S8E|1|2|A|855
8S8E|1|2|U|856
8S8E|1|2|G|857
8S8E|1|2|A|858
8S8E|1|2|U|859

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

40S ribosomal protein S4

Chain H

40S ribosomal protein S7

Chain L

KLLA0A10483p

Chain N

KLLA0F18040p

Chain W

Small ribosomal subunit protein uS8