J5_6IP6_007

3D structure

PDB id

6IP6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the CMV-stalled human 80S ribosome with HCV IRES (Structure iii)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.5 Å

Loop

Sequence

CUUGU*AAAUAAC*GGAAUGAG*CGAGGAUCCAU*AUAG

Length

35 nucleotides

Bulged bases

6IP6|1|2m|A|590, 6IP6|1|2m|U|591, 6IP6|1|2m|C|593

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

6IP6|1|2m|C|30
6IP6|1|2m|U|31
6IP6|1|2m|U|32
6IP6|1|2m|G|33
6IP6|1|2m|U|34
*
6IP6|1|2m|A|521
6IP6|1|2m|A|522
6IP6|1|2m|A|523
6IP6|1|2m|U|524
6IP6|1|2m|A|525
6IP6|1|2m|A|526
6IP6|1|2m|C|527
*
6IP6|1|2m|G|558
6IP6|1|2m|G|559
6IP6|1|2m|A|560
6IP6|1|2m|A|561
6IP6|1|2m|U|562
6IP6|1|2m|G|563
6IP6|1|2m|A|564
6IP6|1|2m|G|565
*
6IP6|1|2m|C|585
6IP6|1|2m|G|586
6IP6|1|2m|A|587
6IP6|1|2m|G|588
6IP6|1|2m|G|589
6IP6|1|2m|A|590
6IP6|1|2m|U|591
6IP6|1|2m|C|592
6IP6|1|2m|C|593
6IP6|1|2m|A|594
6IP6|1|2m|U|595
*
6IP6|1|2m|A|641
6IP6|1|2m|U|642
6IP6|1|2m|A|643
6IP6|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