J5_6FYX_004

3D structure

PDB id

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

Description

Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C1)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.5 Å

Loop

Sequence

AUAGUUCCUUUACUACAU*AUGCUUAAAA*UG*CGA*UGGU

Length

37 nucleotides

Bulged bases

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

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

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

40S ribosomal protein S4

Chain G

40S ribosomal protein S6