J4_8CF5_010

3D structure

PDB id

8CF5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Translocation intermediate 1 (TI-1) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

2.71 Å

Loop

Sequence

UUAG*CGC*GAGGUCC*GA

Length

16 nucleotides

Bulged bases

8CF5|1|Bb|U|8, 8CF5|1|Bb|U|47, 8CF5|1|Bb|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_8CF5_010 not in the Motif Atlas

Homologous match to J4_6CFJ_015

Geometric discrepancy: 0.262

The information below is about J4_6CFJ_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_70449.29

Basepair signature

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

Number of instances in this motif group

54

Unit IDs

8CF5|1|Bb|U|7
8CF5|1|Bb|U|8
8CF5|1|Bb|A|9
8CF5|1|Bb|G|10
*
8CF5|1|Bb|C|25
8CF5|1|Bb|G|26
8CF5|1|Bb|C|27
*
8CF5|1|Bb|G|43
8CF5|1|Bb|A|44
8CF5|1|Bb|G|45
8CF5|1|Bb|G|46
8CF5|1|Bb|U|47
8CF5|1|Bb|C|48
8CF5|1|Bb|C|49
*
8CF5|1|Bb|G|65
8CF5|1|Bb|A|66

Current chains

Chain Bb

Transfer RNA Phe

Nearby chains

Chain AA

Large subunit ribosomal RNA; LSU rRNA

Chain Aa

Elongation factor 2

Chain MM

60S ribosomal protein L10

Chain c

Small subunit ribosomal RNA; SSU rRNA