IL_8XSX_088

3D structure

PDB id

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

Description

Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2

Experimental method

ELECTRON MICROSCOPY

Resolution

2.4 Å

Loop

Sequence

GAGUG*CUC

Length

8 nucleotides

Bulged bases

8XSX|1|L5|A|2002

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

IL_8XSX_088 not in the Motif Atlas

Geometric match to IL_5D8H_003

Geometric discrepancy: 0.1105

The information below is about IL_5D8H_003

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_36931.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

23

Unit IDs

8XSX|1|L5|G|2001
8XSX|1|L5|A|2002
8XSX|1|L5|G|2003
8XSX|1|L5|U|2004
8XSX|1|L5|G|2005
*
8XSX|1|L5|C|2014
8XSX|1|L5|U|2015
8XSX|1|L5|C|2016

Current chains

Chain L5

28S rRNA

Nearby chains

Chain LK

60S ribosomal protein L12

Chain Ls

Large ribosomal subunit protein uL10