J5_3JAP_004

3D structure

PDB id

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

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

4.9 Å

Loop

Sequence

AUAGUUCCUUUACUACAU*AUGCUUAAAA*UG*CGAAU*AUGGUU

Length

41 nucleotides

Bulged bases

3JAP|1|2|U|128, 3JAP|1|2|C|130, 3JAP|1|2|C|131, 3JAP|1|2|U|132, 3JAP|1|2|U|133, 3JAP|1|2|U|134, 3JAP|1|2|A|135, 3JAP|1|2|C|136, 3JAP|1|2|C|139, 3JAP|1|2|A|140, 3JAP|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

3JAP|1|2|A|124
3JAP|1|2|U|125
3JAP|1|2|A|126
3JAP|1|2|G|127
3JAP|1|2|U|128
3JAP|1|2|U|129
3JAP|1|2|C|130
3JAP|1|2|C|131
3JAP|1|2|U|132
3JAP|1|2|U|133
3JAP|1|2|U|134
3JAP|1|2|A|135
3JAP|1|2|C|136
3JAP|1|2|U|137
3JAP|1|2|A|138
3JAP|1|2|C|139
3JAP|1|2|A|140
3JAP|1|2|U|141
*
3JAP|1|2|A|172
3JAP|1|2|U|173
3JAP|1|2|G|174
3JAP|1|2|C|175
3JAP|1|2|U|176
3JAP|1|2|U|177
3JAP|1|2|A|178
3JAP|1|2|A|179
3JAP|1|2|A|180
3JAP|1|2|A|181
*
3JAP|1|2|U|202
3JAP|1|2|G|203
*
3JAP|1|2|C|262
3JAP|1|2|G|263
3JAP|1|2|A|264
3JAP|1|2|A|265
3JAP|1|2|U|266
*
3JAP|1|2|A|287
3JAP|1|2|U|288
3JAP|1|2|G|289
3JAP|1|2|G|290
3JAP|1|2|U|291
3JAP|1|2|U|292

Current chains

Chain 2

18S rRNA

Nearby chains

Chain E

eS4

Chain G

eS6

Chain I

eS8