J4_8YOP_009

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

CUG*CG*CUUAAGGUAG*UGAAUG

Length

21 nucleotides

Bulged bases

8YOP|1|L5|U|3818

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

J4_8YOP_009 not in the Motif Atlas

Homologous match to J4_8C3A_007

Geometric discrepancy: 0.0962

The information below is about J4_8C3A_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

8YOP|1|L5|C|3696
8YOP|1|L5|U|3697
8YOP|1|L5|G|3698
*
8YOP|1|L5|C|3752
8YOP|1|L5|G|3753
*
8YOP|1|L5|C|3771
8YOP|1|L5|U|3772
8YOP|1|L5|U|3773
8YOP|1|L5|A|3774
8YOP|1|L5|A|3775
8YOP|1|L5|G|3776
8YOP|1|L5|G|3777
8YOP|1|L5|U|3778
8YOP|1|L5|A|3779
8YOP|1|L5|G|3780
*
8YOP|1|L5|U|3814
8YOP|1|L5|G|3815
8YOP|1|L5|A|3816
8YOP|1|L5|A|3817
8YOP|1|L5|U|3818
8YOP|1|L5|G|3819

Current chains

Chain L5

28S rRNA

Nearby chains

Chain LA

60S ribosomal protein L8

Chain Ln

60S ribosomal protein L41

Chain S2

Small subunit ribosomal RNA; SSU rRNA