J3_8K2D_003

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

UAG*CGUAG*UCGA

Length

12 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

J3_8K2D_003 not in the Motif Atlas

Homologous match to J3_8C3A_004

Geometric discrepancy: 0.101

The information below is about J3_8C3A_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_44724.5

Basepair signature

cWW-tSH-F-cWW-tHS-cWW-F

Number of instances in this motif group

6

Unit IDs

8K2D|1|C1|U|829
8K2D|1|C1|A|830
8K2D|1|C1|G|831
*
8K2D|1|C1|C|863
8K2D|1|C1|G|864
8K2D|1|C1|U|865
8K2D|1|C1|A|866
8K2D|1|C1|G|867
*
8K2D|1|C1|U|892
8K2D|1|C1|C|893
8K2D|1|C1|G|894
8K2D|1|C1|A|895

Current chains

Chain C1

23S rRNA

Nearby chains

Chain LA

Large ribosomal subunit protein uL2A

Chain LR

Large ribosomal subunit protein eL19A

Chain Lg

Large ribosomal subunit protein eL34A