J3_8S8D_005

3D structure

PDB id

8S8D (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.45 Å

Loop

Sequence

AUCA*UAACUACUG*CAUUU

Length

18 nucleotides

Bulged bases

8S8D|1|2|C|933

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

J3_8S8D_005 not in the Motif Atlas

Homologous match to J3_8P9A_074

Geometric discrepancy: 0.0937

The information below is about J3_8P9A_074

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_23895.1

Basepair signature

cWW-cWW-cWW-cWW-tWW-cWW-F-F-F-F-F

Number of instances in this motif group

2

Unit IDs

8S8D|1|2|A|880
8S8D|1|2|U|881
8S8D|1|2|C|882
8S8D|1|2|A|883
*
8S8D|1|2|U|927
8S8D|1|2|A|928
8S8D|1|2|A|929
8S8D|1|2|C|930
8S8D|1|2|U|931
8S8D|1|2|A|932
8S8D|1|2|C|933
8S8D|1|2|U|934
8S8D|1|2|G|935
*
8S8D|1|2|C|942
8S8D|1|2|A|943
8S8D|1|2|U|944
8S8D|1|2|U|945
8S8D|1|2|U|946

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain B

Small ribosomal subunit protein eS1

Chain O

Small ribosomal subunit protein uS11

Chain a

40S ribosomal protein S26