IL_6P5I_118

3D structure

PDB id

6P5I (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 1)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

GG*CGACC

Length

7 nucleotides

Bulged bases

6P5I|1|5|G|666, 6P5I|1|5|A|667, 6P5I|1|5|C|668

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

IL_6P5I_118 not in the Motif Atlas

Geometric match to IL_1NBS_009

Geometric discrepancy: 0.2111

The information below is about IL_1NBS_009

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_71421.2

Basepair signature

cWW-cWW

Number of instances in this motif group

35

Unit IDs

6P5I|1|5|G|487
6P5I|1|5|G|488
*
6P5I|1|5|C|665
6P5I|1|5|G|666
6P5I|1|5|A|667
6P5I|1|5|C|668
6P5I|1|5|C|669

Current chains

Chain 5

28S rRNA

Nearby chains

Chain AC

uL4

Chain AQ

eL18

Chain Ar

eL28