J4_8S8K_004

3D structure

PDB id

8S8K (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a yeast 48S-AUC preinitiation complex in swivelled conformation (model py48S-AUC-swiv-eIF1)

Experimental method

ELECTRON MICROSCOPY

Resolution

4 Å

Loop

Sequence

AAG*CGAAAG*CCAUAAACUAUG*UU

Length

23 nucleotides

Bulged bases

8S8K|1|2|A|622, 8S8K|1|2|A|1025, 8S8K|1|2|U|1028, 8S8K|1|2|U|1030

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

J4_8S8K_004 not in the Motif Atlas

Homologous match to J4_8P9A_022

Geometric discrepancy: 0.1032

The information below is about J4_8P9A_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_14595.2

Basepair signature

cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F

Number of instances in this motif group

6

Unit IDs

8S8K|1|2|A|621
8S8K|1|2|A|622
8S8K|1|2|G|623
*
8S8K|1|2|C|974
8S8K|1|2|G|975
8S8K|1|2|A|976
8S8K|1|2|A|977
8S8K|1|2|A|978
8S8K|1|2|G|979
*
8S8K|1|2|C|1020
8S8K|1|2|C|1021
8S8K|1|2|A|1022
8S8K|1|2|U|1023
8S8K|1|2|A|1024
8S8K|1|2|A|1025
8S8K|1|2|A|1026
8S8K|1|2|C|1027
8S8K|1|2|U|1028
8S8K|1|2|A|1029
8S8K|1|2|U|1030
8S8K|1|2|G|1031
*
8S8K|1|2|U|1102
8S8K|1|2|U|1103

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain L

KLLA0A10483p

Chain N

KLLA0F18040p

Chain O

Small ribosomal subunit protein uS11

Chain W

Small ribosomal subunit protein uS8

Chain X

KLLA0B11231p

Chain a

40S ribosomal protein S26

Chain h

60S ribosomal protein L41-A

Chain n

Eukaryotic translation initiation factor 3 subunit C