J4_5MC6_017

3D structure

PDB id

5MC6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of a native ribosome-Ski2-Ski3-Ski8 complex from S. cerevisiae

Experimental method

ELECTRON MICROSCOPY

Resolution

3.8 Å

Loop

Sequence

GUUAG*CAG*UUGGUCG*CAC

Length

18 nucleotides

Bulged bases

5MC6|1|m|U|8, 5MC6|1|m|U|47, 5MC6|1|m|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_5MC6_017 not in the Motif Atlas

Homologous match to J4_8VU0_001

Geometric discrepancy: 0.5903

The information below is about J4_8VU0_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

5MC6|1|m|G|6
5MC6|1|m|U|7
5MC6|1|m|U|8
5MC6|1|m|A|9
5MC6|1|m|G|10
*
5MC6|1|m|C|25
5MC6|1|m|A|26
5MC6|1|m|G|27
*
5MC6|1|m|U|43
5MC6|1|m|U|44
5MC6|1|m|G|45
5MC6|1|m|G|46
5MC6|1|m|U|47
5MC6|1|m|C|48
5MC6|1|m|G|49
*
5MC6|1|m|C|65
5MC6|1|m|A|66
5MC6|1|m|C|67

Current chains

Chain m

A-site tRNA

Nearby chains

Chain BQ

Large subunit ribosomal RNA; LSU rRNA

Chain n

Transfer RNA; tRNA