J3_8YOP_006

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

GAAG*CCAUAUC*GUC

Length

14 nucleotides

Bulged bases

8YOP|1|L5|U|2788, 8YOP|1|L5|A|2789

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_8YOP_006 not in the Motif Atlas

Homologous match to J3_8C3A_007

Geometric discrepancy: 0.0826

The information below is about J3_8C3A_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_74051.1

Basepair signature

cWW-tSH-tWW-tHW-F-F-cWW-cWW

Number of instances in this motif group

3

Unit IDs

8YOP|1|L5|G|2402
8YOP|1|L5|A|2403
8YOP|1|L5|A|2404
8YOP|1|L5|G|2405
*
8YOP|1|L5|C|2785
8YOP|1|L5|C|2786
8YOP|1|L5|A|2787
8YOP|1|L5|U|2788
8YOP|1|L5|A|2789
8YOP|1|L5|U|2790
8YOP|1|L5|C|2791
*
8YOP|1|L5|G|2800
8YOP|1|L5|U|2801
8YOP|1|L5|C|2802

Current chains

Chain L5

28S rRNA

Nearby chains

Chain Lg

60S ribosomal protein L34

Chain Lj

60S ribosomal protein L37

Chain Ll

60S ribosomal protein L39