J5_6IP8_006

3D structure

PDB id

6IP8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the HCV IRES dependently initiated CMV-stalled 80S ribosome (Structure iv)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

CUUGU*AAAUAAC*GGAAUGAG*CGAGGAUCCAUU*AAUAG

Length

37 nucleotides

Bulged bases

6IP8|1|2m|A|590, 6IP8|1|2m|C|593

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

6IP8|1|2m|C|30
6IP8|1|2m|U|31
6IP8|1|2m|U|32
6IP8|1|2m|G|33
6IP8|1|2m|U|34
*
6IP8|1|2m|A|521
6IP8|1|2m|A|522
6IP8|1|2m|A|523
6IP8|1|2m|U|524
6IP8|1|2m|A|525
6IP8|1|2m|A|526
6IP8|1|2m|C|527
*
6IP8|1|2m|G|558
6IP8|1|2m|G|559
6IP8|1|2m|A|560
6IP8|1|2m|A|561
6IP8|1|2m|U|562
6IP8|1|2m|G|563
6IP8|1|2m|A|564
6IP8|1|2m|G|565
*
6IP8|1|2m|C|585
6IP8|1|2m|G|586
6IP8|1|2m|A|587
6IP8|1|2m|G|588
6IP8|1|2m|G|589
6IP8|1|2m|A|590
6IP8|1|2m|U|591
6IP8|1|2m|C|592
6IP8|1|2m|C|593
6IP8|1|2m|A|594
6IP8|1|2m|U|595
6IP8|1|2m|U|596
*
6IP8|1|2m|A|640
6IP8|1|2m|A|641
6IP8|1|2m|U|642
6IP8|1|2m|A|643
6IP8|1|2m|G|644

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 3B

40S ribosomal protein S23

Chain 3I

40S ribosomal protein S9

Chain 3Q

40S ribosomal protein S30