IL_8YOP_076

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

GUCU*AAC

Length

7 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

IL_8YOP_076 not in the Motif Atlas

Geometric match to IL_3PDR_004

Geometric discrepancy: 0.3571

The information below is about IL_3PDR_004

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_36931.2

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

24

Unit IDs

8YOP|1|L5|G|1753
8YOP|1|L5|U|1754
8YOP|1|L5|C|1755
8YOP|1|L5|U|1756
*
8YOP|1|L5|A|1775
8YOP|1|L5|A|1776
8YOP|1|L5|C|1777

Current chains

Chain L5

28S rRNA

Nearby chains

Chain LD

60S ribosomal protein L5

Chain LI

Large ribosomal subunit protein uL16

Chain LJ

60S ribosomal protein L11