IL_6SNT_146

3D structure

PDB id

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

Description

Yeast 80S ribosome stalled on SDD1 mRNA.

Experimental method

ELECTRON MICROSCOPY

Resolution

2.8 Å

Loop

Sequence

GUA*UUUUC

Length

8 nucleotides

Bulged bases

6SNT|1|2|U|260

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_6SNT_146 not in the Motif Atlas

Geometric match to IL_7RQB_022

Geometric discrepancy: 0.244

The information below is about IL_7RQB_022

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_05564.2

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

14

Unit IDs

6SNT|1|2|G|204
6SNT|1|2|U|205
6SNT|1|2|A|206
*
6SNT|1|2|U|259
6SNT|1|2|U|260
6SNT|1|2|U|261
6SNT|1|2|U|262
6SNT|1|2|C|263

Current chains

Chain 2

Saccharomyces cerevisiae S288C 18S ribosomal RNA (RDN18-1), rRNA

Nearby chains

Chain E

40S ribosomal protein S4-A

Chain G

40S ribosomal protein S6-A

Chain I

40S ribosomal protein S8-A