J4_9BUP_011

3D structure

PDB id

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

Description

Single particle CryoEM structure of the Pf80S ribosome in non-rotated PRE state (nrt A-P-E)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.7 Å

Loop

Sequence

GUGG*CGU*AAGGUCG*CC

Length

16 nucleotides

Bulged bases

9BUP|1|S8|U|8, 9BUP|1|S8|U|47, 9BUP|1|S8|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_9BUP_011 not in the Motif Atlas

Homologous match to J4_1IL2_001

Geometric discrepancy: 0.1877

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

9BUP|1|S8|G|7
9BUP|1|S8|U|8
9BUP|1|S8|G|9
9BUP|1|S8|G|10
*
9BUP|1|S8|C|25
9BUP|1|S8|G|26
9BUP|1|S8|U|27
*
9BUP|1|S8|A|43
9BUP|1|S8|A|44
9BUP|1|S8|G|45
9BUP|1|S8|G|46
9BUP|1|S8|U|47
9BUP|1|S8|C|48
9BUP|1|S8|G|49
*
9BUP|1|S8|C|65
9BUP|1|S8|C|66

Current chains

Chain S8

tRNA

Nearby chains

Chain AA

Large subunit ribosomal RNA; LSU rRNA

Chain AQ

60S ribosomal protein L10