IL_8CF5_080

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

GGGAA*U(OMC)C

Length

8 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: OMC

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

IL_8CF5_080 not in the Motif Atlas

Geometric match to IL_7RQB_093

Geometric discrepancy: 0.3624

The information below is about IL_7RQB_093

Detailed Annotation

Major groove platform with extra pair

Broad Annotation

Major groove platform

Motif group

IL_63450.2

Basepair signature

cWW-cWW-cSH-cWW

Number of instances in this motif group

8

Unit IDs

8CF5|1|AA|G|1897
8CF5|1|AA|G|1898
8CF5|1|AA|G|1899
8CF5|1|AA|A|1900
8CF5|1|AA|A|1901
*
8CF5|1|AA|U|2336
8CF5|1|AA|OMC|2337
8CF5|1|AA|C|2338

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain FF

60S ribosomal protein L3

Chain H

60S ribosomal protein L23-A

Chain I

60S ribosomal protein L24-A