J5_9KZU_008

3D structure

PDB id

9KZU (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the HCV IRES-dependently initiated CMV-stalled 80S ribosome (non-rotated state) in complexed with eIF3

Experimental method

ELECTRON MICROSCOPY

Resolution

3 Å

Loop

Sequence

GGUCGCUCGCUCCUCUCCUACUU*AUGCCGACGGG*UGCAUU*ACCUCGGGCCGAU*ACGACCC

Length

60 nucleotides

Bulged bases

9KZU|1|S2|C|127, 9KZU|1|S2|U|128, 9KZU|1|S2|C|129, 9KZU|1|S2|G|130, 9KZU|1|S2|C|131, 9KZU|1|S2|U|132, 9KZU|1|S2|C|133, 9KZU|1|S2|C|134, 9KZU|1|S2|U|135, 9KZU|1|S2|C|136, 9KZU|1|S2|U|137, 9KZU|1|S2|C|138, 9KZU|1|S2|C|139, 9KZU|1|S2|C|142, 9KZU|1|S2|U|143, 9KZU|1|S2|A|181, 9KZU|1|S2|G|183, 9KZU|1|S2|U|305, 9KZU|1|S2|G|308

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

9KZU|1|S2|G|122
9KZU|1|S2|G|123
9KZU|1|S2|U|124
9KZU|1|S2|C|125
9KZU|1|S2|G|126
9KZU|1|S2|C|127
9KZU|1|S2|U|128
9KZU|1|S2|C|129
9KZU|1|S2|G|130
9KZU|1|S2|C|131
9KZU|1|S2|U|132
9KZU|1|S2|C|133
9KZU|1|S2|C|134
9KZU|1|S2|U|135
9KZU|1|S2|C|136
9KZU|1|S2|U|137
9KZU|1|S2|C|138
9KZU|1|S2|C|139
9KZU|1|S2|U|140
9KZU|1|S2|A|141
9KZU|1|S2|C|142
9KZU|1|S2|U|143
9KZU|1|S2|U|144
*
9KZU|1|S2|A|175
9KZU|1|S2|U|176
9KZU|1|S2|G|177
9KZU|1|S2|C|178
9KZU|1|S2|C|179
9KZU|1|S2|G|180
9KZU|1|S2|A|181
9KZU|1|S2|C|182
9KZU|1|S2|G|183
9KZU|1|S2|G|184
9KZU|1|S2|G|185
*
9KZU|1|S2|U|214
9KZU|1|S2|G|215
9KZU|1|S2|C|216
9KZU|1|S2|A|217
9KZU|1|S2|U|218
9KZU|1|S2|U|219
*
9KZU|1|S2|A|302
9KZU|1|S2|C|303
9KZU|1|S2|C|304
9KZU|1|S2|U|305
9KZU|1|S2|C|306
9KZU|1|S2|G|307
9KZU|1|S2|G|308
9KZU|1|S2|G|309
9KZU|1|S2|C|310
9KZU|1|S2|C|311
9KZU|1|S2|G|312
9KZU|1|S2|A|313
9KZU|1|S2|U|314
*
9KZU|1|S2|A|336
9KZU|1|S2|C|337
9KZU|1|S2|G|338
9KZU|1|S2|A|339
9KZU|1|S2|C|340
9KZU|1|S2|C|341
9KZU|1|S2|C|342

Current chains

Chain S2

18S ribosomal RNA

Nearby chains

Chain SE

40S ribosomal protein S4, X isoform

Chain SG

40S ribosomal protein S6

Chain SI

40S ribosomal protein S8