IL_8K2D_087

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

CCAG*CG

Length

6 nucleotides

Bulged bases

8K2D|1|C1|C|2197

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_087 not in the Motif Atlas

Homologous match to IL_5TBW_084

Geometric discrepancy: 0.0881

The information below is about IL_5TBW_084

Detailed Annotation

Major groove intercalation

Broad Annotation

No text annotation

Motif group

IL_88739.5

Basepair signature

cWW-L-cWW

Number of instances in this motif group

12

Unit IDs

8K2D|1|C1|C|2196
8K2D|1|C1|C|2197
8K2D|1|C1|A|2198
8K2D|1|C1|G|2199
*
8K2D|1|C1|C|2245
8K2D|1|C1|G|2246

Current chains

Chain C1

23S rRNA

Nearby chains

Chain C2

Small subunit ribosomal RNA; SSU rRNA

Chain CE

Eukaryotic translation initiation factor 5A-1

Chain LA

Large ribosomal subunit protein uL2A