IL_8K2D_117

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

UA*UAAG

Length

6 nucleotides

Bulged bases

8K2D|1|C1|A|2911

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_117 not in the Motif Atlas

Geometric match to IL_5TBW_111

Geometric discrepancy: 0.1732

The information below is about IL_5TBW_111

Detailed Annotation

Major groove platform with intercalation

Broad Annotation

Major groove platform

Motif group

IL_95601.6

Basepair signature

cWW-L-cWW

Number of instances in this motif group

9

Unit IDs

8K2D|1|C1|U|2891
8K2D|1|C1|A|2892
*
8K2D|1|C1|U|2909
8K2D|1|C1|A|2910
8K2D|1|C1|A|2911
8K2D|1|C1|G|2912

Current chains

Chain C1

23S rRNA

Nearby chains

Chain LH

Large ribosomal subunit protein uL6A

Chain LO

Large ribosomal subunit protein uL13A

Chain Lm

Ubiquitin-ribosomal protein eL40A fusion protein