J3_8K2D_004

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

GAC*GCUAAGG*CAC

Length

13 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_004 not in the Motif Atlas

Homologous match to J3_5TBW_007

Geometric discrepancy: 0.2973

The information below is about J3_5TBW_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_28621.3

Basepair signature

cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW

Number of instances in this motif group

7

Unit IDs

8K2D|1|C1|G|1230
8K2D|1|C1|A|1231
8K2D|1|C1|C|1232
*
8K2D|1|C1|G|1256
8K2D|1|C1|C|1257
8K2D|1|C1|U|1258
8K2D|1|C1|A|1259
8K2D|1|C1|A|1260
8K2D|1|C1|G|1261
8K2D|1|C1|G|1262
*
8K2D|1|C1|C|1277
8K2D|1|C1|A|1278
8K2D|1|C1|C|1279

Current chains

Chain C1

23S rRNA

Nearby chains

Chain LK

Large ribosomal subunit protein uL11A

Chain P0

Large ribosomal subunit protein uL10