J3_8YOP_004

3D structure

PDB id

8YOP (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the human 80S ribosome with 4 um Tigecycline

Experimental method

ELECTRON MICROSCOPY

Resolution

2.2 Å

Loop

Sequence

GAC*GCUAAGG*CAC

Length

13 nucleotides

Bulged bases

None detected

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

J3_8YOP_004 not in the Motif Atlas

Homologous match to J3_8P9A_052

Geometric discrepancy: 0.2503

The information below is about J3_8P9A_052

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_37832.1

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

8YOP|1|L5|G|1969
8YOP|1|L5|A|1970
8YOP|1|L5|C|1971
*
8YOP|1|L5|G|1995
8YOP|1|L5|C|1996
8YOP|1|L5|U|1997
8YOP|1|L5|A|1998
8YOP|1|L5|A|1999
8YOP|1|L5|G|2000
8YOP|1|L5|G|2001
*
8YOP|1|L5|C|2016
8YOP|1|L5|A|2017
8YOP|1|L5|C|2018

Current chains

Chain L5

28S rRNA

Nearby chains

Chain Ls

Large ribosomal subunit protein uL10

Chain Lt

60S ribosomal protein L12