J5_6FYY_004

3D structure

PDB id

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

Description

Structure of a partial yeast 48S preinitiation complex with eIF5 N-terminal domain (model C2)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.02 Å

Loop

Sequence

AUAGUUCCUUUACUACAU*AUGCUUAAAA*UG*CGA*UGGU

Length

37 nucleotides

Bulged bases

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

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

Chain I

40S ribosomal protein S8