J5_8S8H_005

3D structure

PDB id

8S8H (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2.2)

Experimental method

ELECTRON MICROSCOPY

Resolution

4 Å

Loop

Sequence

AUAGUUCCUUUACUACAU*AUGCUUAAAAU*AUG*CGAAU*AUGGUU

Length

43 nucleotides

Bulged bases

8S8H|1|2|U|132, 8S8H|1|2|U|133, 8S8H|1|2|U|134, 8S8H|1|2|A|135, 8S8H|1|2|C|136, 8S8H|1|2|C|139, 8S8H|1|2|A|140, 8S8H|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

8S8H|1|2|A|124
8S8H|1|2|U|125
8S8H|1|2|A|126
8S8H|1|2|G|127
8S8H|1|2|U|128
8S8H|1|2|U|129
8S8H|1|2|C|130
8S8H|1|2|C|131
8S8H|1|2|U|132
8S8H|1|2|U|133
8S8H|1|2|U|134
8S8H|1|2|A|135
8S8H|1|2|C|136
8S8H|1|2|U|137
8S8H|1|2|A|138
8S8H|1|2|C|139
8S8H|1|2|A|140
8S8H|1|2|U|141
*
8S8H|1|2|A|172
8S8H|1|2|U|173
8S8H|1|2|G|174
8S8H|1|2|C|175
8S8H|1|2|U|176
8S8H|1|2|U|177
8S8H|1|2|A|178
8S8H|1|2|A|179
8S8H|1|2|A|180
8S8H|1|2|A|181
8S8H|1|2|U|182
*
8S8H|1|2|A|201
8S8H|1|2|U|202
8S8H|1|2|G|203
*
8S8H|1|2|C|262
8S8H|1|2|G|263
8S8H|1|2|A|264
8S8H|1|2|A|265
8S8H|1|2|U|266
*
8S8H|1|2|A|287
8S8H|1|2|U|288
8S8H|1|2|G|289
8S8H|1|2|G|290
8S8H|1|2|U|291
8S8H|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