J4_6P5K_002

3D structure

PDB id

6P5K (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

CAUUAAAUC*GCC*GUGAC*GG

Length

19 nucleotides

Bulged bases

6P5K|1|2|G|407

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

J4_6P5K_002 not in the Motif Atlas

Homologous match to J4_8C3A_021

Geometric discrepancy: 0.1798

The information below is about J4_8C3A_021

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_78231.1

Basepair signature

cWW-cSH-tHS-cWW-F-F-tHW-F-cWW-F-F-F-cWW

Number of instances in this motif group

2

Unit IDs

6P5K|1|2|C|98
6P5K|1|2|A|99
6P5K|1|2|U|100
6P5K|1|2|U|101
6P5K|1|2|A|102
6P5K|1|2|A|103
6P5K|1|2|A|104
6P5K|1|2|U|105
6P5K|1|2|C|106
*
6P5K|1|2|G|355
6P5K|1|2|C|356
6P5K|1|2|C|357
*
6P5K|1|2|G|405
6P5K|1|2|U|406
6P5K|1|2|G|407
6P5K|1|2|A|408
6P5K|1|2|C|409
*
6P5K|1|2|G|431
6P5K|1|2|G|432

Current chains

Chain 2

18S rRNA

Nearby chains

Chain F

eS4

Chain J

eS8

Chain M

uS17

Chain Y

uS12