J5_8S8G_004

3D structure

PDB id

8S8G (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.1)

Experimental method

ELECTRON MICROSCOPY

Resolution

4 Å

Loop

Sequence

AUAGUUCCUUUACUACAU*AUGCUUAAAA*UG*CGA*UGGUU

Length

38 nucleotides

Bulged bases

8S8G|1|2|C|130, 8S8G|1|2|C|131, 8S8G|1|2|U|134, 8S8G|1|2|A|135, 8S8G|1|2|C|136, 8S8G|1|2|C|139, 8S8G|1|2|A|140, 8S8G|1|2|U|177

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

8S8G|1|2|A|124
8S8G|1|2|U|125
8S8G|1|2|A|126
8S8G|1|2|G|127
8S8G|1|2|U|128
8S8G|1|2|U|129
8S8G|1|2|C|130
8S8G|1|2|C|131
8S8G|1|2|U|132
8S8G|1|2|U|133
8S8G|1|2|U|134
8S8G|1|2|A|135
8S8G|1|2|C|136
8S8G|1|2|U|137
8S8G|1|2|A|138
8S8G|1|2|C|139
8S8G|1|2|A|140
8S8G|1|2|U|141
*
8S8G|1|2|A|172
8S8G|1|2|U|173
8S8G|1|2|G|174
8S8G|1|2|C|175
8S8G|1|2|U|176
8S8G|1|2|U|177
8S8G|1|2|A|178
8S8G|1|2|A|179
8S8G|1|2|A|180
8S8G|1|2|A|181
*
8S8G|1|2|U|202
8S8G|1|2|G|203
*
8S8G|1|2|C|262
8S8G|1|2|G|263
8S8G|1|2|A|264
*
8S8G|1|2|U|288
8S8G|1|2|G|289
8S8G|1|2|G|290
8S8G|1|2|U|291
8S8G|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