J5_9KZX_008

3D structure

PDB id

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

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

3.3 Å

Loop

Sequence

GUCGCUCGCUCCUCUCCUACUU*AUGCCGACGGG*UGCAUU*ACCUCGGGCCG*CGACC

Length

55 nucleotides

Bulged bases

9KZX|1|S2|G|126, 9KZX|1|S2|C|127, 9KZX|1|S2|C|131, 9KZX|1|S2|U|132, 9KZX|1|S2|C|133, 9KZX|1|S2|C|134, 9KZX|1|S2|U|135, 9KZX|1|S2|C|136, 9KZX|1|S2|U|137, 9KZX|1|S2|C|138, 9KZX|1|S2|C|139, 9KZX|1|S2|C|142, 9KZX|1|S2|U|143, 9KZX|1|S2|U|305, 9KZX|1|S2|G|307

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

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

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