J3_6P5K_007

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

CCAG*CCAGUAA*UGAUUAAG

Length

19 nucleotides

Bulged bases

None detected

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

J3_6P5K_007 not in the Motif Atlas

Homologous match to J3_4V88_035

Geometric discrepancy: 0.1191

The information below is about J3_4V88_035

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.1

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

6P5K|1|2|C|1218
6P5K|1|2|C|1219
6P5K|1|2|A|1220
6P5K|1|2|G|1221
*
6P5K|1|2|C|1645
6P5K|1|2|C|1646
6P5K|1|2|A|1647
6P5K|1|2|G|1648
6P5K|1|2|U|1649
6P5K|1|2|A|1650
6P5K|1|2|A|1651
*
6P5K|1|2|U|1673
6P5K|1|2|G|1674
6P5K|1|2|A|1675
6P5K|1|2|U|1676
6P5K|1|2|U|1677
6P5K|1|2|A|1678
6P5K|1|2|A|1679
6P5K|1|2|G|1680

Current chains

Chain 2

18S rRNA

Nearby chains

Chain G

uS7

Chain R

uS9

Chain d

eS28