J5_6GSM_003

3D structure

PDB id

6GSM (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a partial yeast 48S preinitiation complex in open conformation

Experimental method

ELECTRON MICROSCOPY

Resolution

5.15 Å

Loop

Sequence

GAUAGUUCCUUUACUACAU*AUGCUUAAAAU*AUG*CGA*UGGUUC

Length

42 nucleotides

Bulged bases

6GSM|1|2|U|128, 6GSM|1|2|U|129, 6GSM|1|2|C|130, 6GSM|1|2|C|131, 6GSM|1|2|U|132, 6GSM|1|2|U|133, 6GSM|1|2|U|134, 6GSM|1|2|A|135, 6GSM|1|2|C|136, 6GSM|1|2|C|139, 6GSM|1|2|A|140, 6GSM|1|2|U|177

QA status

Unknown status

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

6GSM|1|2|G|123
6GSM|1|2|A|124
6GSM|1|2|U|125
6GSM|1|2|A|126
6GSM|1|2|G|127
6GSM|1|2|U|128
6GSM|1|2|U|129
6GSM|1|2|C|130
6GSM|1|2|C|131
6GSM|1|2|U|132
6GSM|1|2|U|133
6GSM|1|2|U|134
6GSM|1|2|A|135
6GSM|1|2|C|136
6GSM|1|2|U|137
6GSM|1|2|A|138
6GSM|1|2|C|139
6GSM|1|2|A|140
6GSM|1|2|U|141
*
6GSM|1|2|A|172
6GSM|1|2|U|173
6GSM|1|2|G|174
6GSM|1|2|C|175
6GSM|1|2|U|176
6GSM|1|2|U|177
6GSM|1|2|A|178
6GSM|1|2|A|179
6GSM|1|2|A|180
6GSM|1|2|A|181
6GSM|1|2|U|182
*
6GSM|1|2|A|201
6GSM|1|2|U|202
6GSM|1|2|G|203
*
6GSM|1|2|C|262
6GSM|1|2|G|263
6GSM|1|2|A|264
*
6GSM|1|2|U|288
6GSM|1|2|G|289
6GSM|1|2|G|290
6GSM|1|2|U|291
6GSM|1|2|U|292
6GSM|1|2|C|293

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

40S ribosomal protein S4

Chain G

40S ribosomal protein S6

Chain I

40S ribosomal protein S8