IL_8K2D_058

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

GAGUG*CUC

Length

8 nucleotides

Bulged bases

8K2D|1|C1|A|1263

QA status

Unknown status

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_058 not in the Motif Atlas

Geometric match to IL_1MMS_002

Geometric discrepancy: 0.1545

The information below is about IL_1MMS_002

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_51387.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

21

Unit IDs

8K2D|1|C1|G|1262
8K2D|1|C1|A|1263
8K2D|1|C1|G|1264
8K2D|1|C1|U|1265
8K2D|1|C1|G|1266
*
8K2D|1|C1|C|1275
8K2D|1|C1|U|1276
8K2D|1|C1|C|1277

Current chains

Chain C1

23S rRNA

Nearby chains

Chain LK

Large ribosomal subunit protein uL11A

Chain Lm

Ubiquitin-ribosomal protein eL40A fusion protein

Chain P0

Large ribosomal subunit protein uL10