J4_9SPF_001

3D structure

PDB id

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

Description

CRYO-EM STRUCTURE OF HUMAN 80S RIBOSOME WITH A/P/E-SITE TRNA AND MRNA CONTAINING N1-METHYLPSEUDOURIDINE

Experimental method

ELECTRON MICROSCOPY

Resolution

2.4 Å

Loop

Sequence

UUAG*CGU*AAGGUCG*UA

Length

16 nucleotides

Bulged bases

9SPF|1|At|U|47, 9SPF|1|At|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_9SPF_001 not in the Motif Atlas

Homologous match to J4_1IL2_001

Geometric discrepancy: 0.266

The information below is about J4_1IL2_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

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

Current chains

Chain At

A-site-tRNA-Ile-AAT-9-1

Nearby chains

Chain L5

Large subunit ribosomal RNA; LSU rRNA