J5_9OGY_004

3D structure

PDB id

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

Description

Megrivirus E 3' internal ribosome entry site (IRES) RNA core region bound to rabbit ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

3.28 Å

Loop

Sequence

GUCGCUC*GGG*UGCAUU*ACCUCGGGCCG*CGACC

Length

32 nucleotides

Bulged bases

9OGY|1|2|G|126, 9OGY|1|2|C|127, 9OGY|1|2|C|304, 9OGY|1|2|U|305, 9OGY|1|2|C|306, 9OGY|1|2|G|307, 9OGY|1|2|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

9OGY|1|2|G|123
9OGY|1|2|U|124
9OGY|1|2|C|125
9OGY|1|2|G|126
9OGY|1|2|C|127
9OGY|1|2|U|128
9OGY|1|2|C|129
*
9OGY|1|2|G|183
9OGY|1|2|G|184
9OGY|1|2|G|185
*
9OGY|1|2|U|214
9OGY|1|2|G|215
9OGY|1|2|C|216
9OGY|1|2|A|217
9OGY|1|2|U|218
9OGY|1|2|U|219
*
9OGY|1|2|A|302
9OGY|1|2|C|303
9OGY|1|2|C|304
9OGY|1|2|U|305
9OGY|1|2|C|306
9OGY|1|2|G|307
9OGY|1|2|G|308
9OGY|1|2|G|309
9OGY|1|2|C|310
9OGY|1|2|C|311
9OGY|1|2|G|312
*
9OGY|1|2|C|337
9OGY|1|2|G|338
9OGY|1|2|A|339
9OGY|1|2|C|340
9OGY|1|2|C|341

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain F

40S ribosomal protein S4

Chain H

40S ribosomal protein S6

Chain J

40S ribosomal protein S8