J5_8S8K_005

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

AUAGUUCCUUUACUACAU*AUGCUUAAAA*UG*CGAAU*AUGGUU

Length

41 nucleotides

Bulged bases

8S8K|1|2|U|128, 8S8K|1|2|C|130, 8S8K|1|2|C|131, 8S8K|1|2|U|134, 8S8K|1|2|A|135, 8S8K|1|2|C|136, 8S8K|1|2|C|139, 8S8K|1|2|A|140

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

8S8K|1|2|A|124
8S8K|1|2|U|125
8S8K|1|2|A|126
8S8K|1|2|G|127
8S8K|1|2|U|128
8S8K|1|2|U|129
8S8K|1|2|C|130
8S8K|1|2|C|131
8S8K|1|2|U|132
8S8K|1|2|U|133
8S8K|1|2|U|134
8S8K|1|2|A|135
8S8K|1|2|C|136
8S8K|1|2|U|137
8S8K|1|2|A|138
8S8K|1|2|C|139
8S8K|1|2|A|140
8S8K|1|2|U|141
*
8S8K|1|2|A|172
8S8K|1|2|U|173
8S8K|1|2|G|174
8S8K|1|2|C|175
8S8K|1|2|U|176
8S8K|1|2|U|177
8S8K|1|2|A|178
8S8K|1|2|A|179
8S8K|1|2|A|180
8S8K|1|2|A|181
*
8S8K|1|2|U|202
8S8K|1|2|G|203
*
8S8K|1|2|C|262
8S8K|1|2|G|263
8S8K|1|2|A|264
8S8K|1|2|A|265
8S8K|1|2|U|266
*
8S8K|1|2|A|287
8S8K|1|2|U|288
8S8K|1|2|G|289
8S8K|1|2|G|290
8S8K|1|2|U|291
8S8K|1|2|U|292

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

40S ribosomal protein S4

Chain G

Small ribosomal subunit protein eS6

Chain I

40S ribosomal protein S8