IL_8K2D_141

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

AGAG*CGAU

Length

8 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_141 not in the Motif Atlas

Homologous match to IL_8C3A_141

Geometric discrepancy: 0.2236

The information below is about IL_8C3A_141

Detailed Annotation

Double sheared; A in syn

Broad Annotation

Double sheared

Motif group

IL_09705.12

Basepair signature

cWW-tSH-tHS-cWW

Number of instances in this motif group

35

Unit IDs

8K2D|1|C1|A|3342
8K2D|1|C1|G|3343
8K2D|1|C1|A|3344
8K2D|1|C1|G|3345
*
8K2D|1|C1|C|3360
8K2D|1|C1|G|3361
8K2D|1|C1|A|3362
8K2D|1|C1|U|3363

Current chains

Chain C1

23S rRNA

Nearby chains

Chain LR

Large ribosomal subunit protein eL19A

Chain LU

Large ribosomal subunit protein eL22A

Chain SI

40S ribosomal protein S8-A