IL_8K2D_080

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

GGAA*UC

Length

6 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

IL_8K2D_080 not in the Motif Atlas

Homologous match to IL_8C3A_082

Geometric discrepancy: 0.0866

The information below is about IL_8C3A_082

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

No text annotation

Motif group

IL_50694.4

Basepair signature

cWW-cWW-tSH-cWW-R

Number of instances in this motif group

28

Unit IDs

8K2D|1|C1|G|1898
8K2D|1|C1|G|1899
8K2D|1|C1|A|1900
8K2D|1|C1|A|1901
*
8K2D|1|C1|U|2336
8K2D|1|C1|C|2337

Current chains

Chain C1

23S rRNA

Nearby chains

Chain LB

Large ribosomal subunit protein uL3

Chain LV

Large ribosomal subunit protein uL14A