J5_3JAQ_004

3D structure

PDB id

3JAQ (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

6 Å

Loop

Sequence

AUAGUUCCUUUACUACAU*AUGCUUAAAA*UG*CGA*UGGUU

Length

38 nucleotides

Bulged bases

3JAQ|1|2|U|132, 3JAQ|1|2|U|133, 3JAQ|1|2|U|134, 3JAQ|1|2|A|135, 3JAQ|1|2|C|136, 3JAQ|1|2|C|139, 3JAQ|1|2|A|140, 3JAQ|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

3JAQ|1|2|A|124
3JAQ|1|2|U|125
3JAQ|1|2|A|126
3JAQ|1|2|G|127
3JAQ|1|2|U|128
3JAQ|1|2|U|129
3JAQ|1|2|C|130
3JAQ|1|2|C|131
3JAQ|1|2|U|132
3JAQ|1|2|U|133
3JAQ|1|2|U|134
3JAQ|1|2|A|135
3JAQ|1|2|C|136
3JAQ|1|2|U|137
3JAQ|1|2|A|138
3JAQ|1|2|C|139
3JAQ|1|2|A|140
3JAQ|1|2|U|141
*
3JAQ|1|2|A|172
3JAQ|1|2|U|173
3JAQ|1|2|G|174
3JAQ|1|2|C|175
3JAQ|1|2|U|176
3JAQ|1|2|U|177
3JAQ|1|2|A|178
3JAQ|1|2|A|179
3JAQ|1|2|A|180
3JAQ|1|2|A|181
*
3JAQ|1|2|U|202
3JAQ|1|2|G|203
*
3JAQ|1|2|C|262
3JAQ|1|2|G|263
3JAQ|1|2|A|264
*
3JAQ|1|2|U|288
3JAQ|1|2|G|289
3JAQ|1|2|G|290
3JAQ|1|2|U|291
3JAQ|1|2|U|292

Current chains

Chain 2

18S rRNA

Nearby chains

Chain E

eS4

Chain G

eS6

Chain I

eS8