J4_9H6I_001

3D structure

PDB id

9H6I (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the Arabidopsis thaliana 80S ribosome in complex with P- and E-site tRNAs, mRNA, and thermospermine

Experimental method

ELECTRON MICROSCOPY

Resolution

2.2 Å

Loop

Sequence

AUAG*CGU*AAGGUCG*CU

Length

16 nucleotides

Bulged bases

9H6I|1|2|U|8, 9H6I|1|2|U|47, 9H6I|1|2|C|48

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_9H6I_001 not in the Motif Atlas

Homologous match to J4_6UFH_001

Geometric discrepancy: 0.1826

The information below is about J4_6UFH_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_95067.1

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

48

Unit IDs

9H6I|1|2|A|7
9H6I|1|2|U|8
9H6I|1|2|A|9
9H6I|1|2|G|10
*
9H6I|1|2|C|25
9H6I|1|2|G|26
9H6I|1|2|U|27
*
9H6I|1|2|A|43
9H6I|1|2|A|44
9H6I|1|2|G|45
9H6I|1|2|G|46
9H6I|1|2|U|47
9H6I|1|2|C|48
9H6I|1|2|G|49
*
9H6I|1|2|C|65
9H6I|1|2|U|66

Current chains

Chain 2

Transfer RNA Phe (GAA)

Nearby chains

Chain A

Large subunit ribosomal RNA; LSU rRNA

Chain BJ

Large ribosomal subunit protein uL16y