J3_8K2D_032

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

AGACG*CC*GAAAAU

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_032 not in the Motif Atlas

Homologous match to J3_8P9A_058

Geometric discrepancy: 0.0899

The information below is about J3_8P9A_058

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_12393.2

Basepair signature

cWW-tSH-tHH-F-F-cWW-F-cWW

Number of instances in this motif group

3

Unit IDs

8K2D|1|C1|A|1654
8K2D|1|C1|G|1655
8K2D|1|C1|A|1656
8K2D|1|C1|C|1657
8K2D|1|C1|G|1658
*
8K2D|1|C1|C|1791
8K2D|1|C1|C|1792
*
8K2D|1|C1|G|1796
8K2D|1|C1|A|1797
8K2D|1|C1|A|1798
8K2D|1|C1|A|1799
8K2D|1|C1|A|1800
8K2D|1|C1|U|1801

Current chains

Chain C1

23S rRNA

Nearby chains

Chain LA

Large ribosomal subunit protein uL2A

Chain Lg

Large ribosomal subunit protein eL34A

Chain Lp

Large ribosomal subunit protein eL43A