J5_6ZVK_010

3D structure

PDB id

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

Description

The Halastavi arva virus (HalV) intergenic region IRES promotes translation by the simplest possible initiation mechanism

Experimental method

ELECTRON MICROSCOPY

Resolution

3.49 Å

Loop

Sequence

CGCUCGCUCCUCUCCCACUU*AUGCCGACGGG*UGCAUU*ACCUCGGGCCGAUC*GACG

Length

55 nucleotides

Bulged bases

6ZVK|1|K3|G|126, 6ZVK|1|K3|G|130, 6ZVK|1|K3|C|131, 6ZVK|1|K3|U|132, 6ZVK|1|K3|U|135, 6ZVK|1|K3|U|137, 6ZVK|1|K3|C|138, 6ZVK|1|K3|C|139, 6ZVK|1|K3|C|142, 6ZVK|1|K3|A|181, 6ZVK|1|K3|C|182, 6ZVK|1|K3|G|184, 6ZVK|1|K3|G|215, 6ZVK|1|K3|C|216, 6ZVK|1|K3|U|305

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

6ZVK|1|K3|C|125
6ZVK|1|K3|G|126
6ZVK|1|K3|C|127
6ZVK|1|K3|U|128
6ZVK|1|K3|C|129
6ZVK|1|K3|G|130
6ZVK|1|K3|C|131
6ZVK|1|K3|U|132
6ZVK|1|K3|C|133
6ZVK|1|K3|C|134
6ZVK|1|K3|U|135
6ZVK|1|K3|C|136
6ZVK|1|K3|U|137
6ZVK|1|K3|C|138
6ZVK|1|K3|C|139
6ZVK|1|K3|C|140
6ZVK|1|K3|A|141
6ZVK|1|K3|C|142
6ZVK|1|K3|U|143
6ZVK|1|K3|U|144
*
6ZVK|1|K3|A|175
6ZVK|1|K3|U|176
6ZVK|1|K3|G|177
6ZVK|1|K3|C|178
6ZVK|1|K3|C|179
6ZVK|1|K3|G|180
6ZVK|1|K3|A|181
6ZVK|1|K3|C|182
6ZVK|1|K3|G|183
6ZVK|1|K3|G|184
6ZVK|1|K3|G|185
*
6ZVK|1|K3|U|214
6ZVK|1|K3|G|215
6ZVK|1|K3|C|216
6ZVK|1|K3|A|217
6ZVK|1|K3|U|218
6ZVK|1|K3|U|219
*
6ZVK|1|K3|A|302
6ZVK|1|K3|C|303
6ZVK|1|K3|C|304
6ZVK|1|K3|U|305
6ZVK|1|K3|C|306
6ZVK|1|K3|G|307
6ZVK|1|K3|G|308
6ZVK|1|K3|G|309
6ZVK|1|K3|C|310
6ZVK|1|K3|C|311
6ZVK|1|K3|G|312
6ZVK|1|K3|A|313
6ZVK|1|K3|U|314
6ZVK|1|K3|C|315
*
6ZVK|1|K3|G|335
6ZVK|1|K3|A|336
6ZVK|1|K3|C|337
6ZVK|1|K3|G|338

Current chains

Chain K3

18S RIBOSOMAL RNA

Nearby chains

Chain b3

40S ribosomal protein S6

Chain c3

40S ribosomal protein S8

Chain j3

40S ribosomal protein S4