IL_8K2D_156

3D structure

PDB id

8K2D (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the yeast 80S ribosome with tigecycline, eEF2, Stm1 and eIF5A

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

GUA*UUUUC

Length

8 nucleotides

Bulged bases

8K2D|1|C2|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_8K2D_156 not in the Motif Atlas

Homologous match to IL_8C3A_405

Geometric discrepancy: 0.1271

The information below is about IL_8C3A_405

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

No text annotation

Motif group

IL_51387.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

15

Unit IDs

8K2D|1|C2|G|204
8K2D|1|C2|U|205
8K2D|1|C2|A|206
*
8K2D|1|C2|U|259
8K2D|1|C2|U|260
8K2D|1|C2|U|261
8K2D|1|C2|U|262
8K2D|1|C2|C|263

Current chains

Chain C2

18S rRNA

Nearby chains

Chain SE

40S ribosomal protein S4-A

Chain SI

40S ribosomal protein S8-A