IL_8K2D_171

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

GUA*UAAC

Length

7 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_171 not in the Motif Atlas

Geometric match to IL_4V88_411

Geometric discrepancy: 0.2658

The information below is about IL_4V88_411

Detailed Annotation

Minor groove platform with extra cWW

Broad Annotation

Minor groove platform

Motif group

IL_46796.2

Basepair signature

cWW-tHS-cWW-cWW

Number of instances in this motif group

6

Unit IDs

8K2D|1|C2|G|516
8K2D|1|C2|U|517
8K2D|1|C2|A|518
*
8K2D|1|C2|U|533
8K2D|1|C2|A|534
8K2D|1|C2|A|535
8K2D|1|C2|C|536

Current chains

Chain C2

18S rRNA

Nearby chains

Chain SJ

40S ribosomal protein S9-A

Chain SY

40S ribosomal protein S24-A