J4_9PKB_009

3D structure

PDB id

9PKB (explore in PDB, NAKB, or RNA 3D Hub)

Description

In situ HHT and CHX treated human hibernating state 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

3.05 Å

Loop

Sequence

CUG*CG*CUUAAGGUAG*UGAA(UY1)G

Length

21 nucleotides

Bulged bases

9PKB|1|L5|UY1|3818

QA status

Modified nucleotides: UY1

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_9PKB_009 not in the Motif Atlas

Homologous match to J4_9H3G_008

Geometric discrepancy: 0.2594

The information below is about J4_9H3G_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_42306.3

Basepair signature

cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

Number of instances in this motif group

5

Unit IDs

9PKB|1|L5|C|3696
9PKB|1|L5|U|3697
9PKB|1|L5|G|3698
*
9PKB|1|L5|C|3752
9PKB|1|L5|G|3753
*
9PKB|1|L5|C|3771
9PKB|1|L5|U|3772
9PKB|1|L5|U|3773
9PKB|1|L5|A|3774
9PKB|1|L5|A|3775
9PKB|1|L5|G|3776
9PKB|1|L5|G|3777
9PKB|1|L5|U|3778
9PKB|1|L5|A|3779
9PKB|1|L5|G|3780
*
9PKB|1|L5|U|3814
9PKB|1|L5|G|3815
9PKB|1|L5|A|3816
9PKB|1|L5|A|3817
9PKB|1|L5|UY1|3818
9PKB|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