J3_8K2D_035

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

AG*CGCAAAU*AGU

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_035 not in the Motif Atlas

Geometric match to J3_8C3A_082

Geometric discrepancy: 0.1157

The information below is about J3_8C3A_082

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_67856.2

Basepair signature

cWW-F-cWW-F-F-cSW-F-cWW

Number of instances in this motif group

5

Unit IDs

8K2D|1|C2|A|41
8K2D|1|C2|G|42
*
8K2D|1|C2|C|433
8K2D|1|C2|G|434
8K2D|1|C2|C|435
8K2D|1|C2|A|436
8K2D|1|C2|A|437
8K2D|1|C2|A|438
8K2D|1|C2|U|439
*
8K2D|1|C2|A|464
8K2D|1|C2|G|465
8K2D|1|C2|U|466

Current chains

Chain C2

18S rRNA

Nearby chains

Chain CD

Elongation factor 2

Chain SJ

40S ribosomal protein S9-A

Chain SX

40S ribosomal protein S23-A