IL_8CF5_064

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

GUAGU(A2M)(OMG)C*GCGAAAC

Length

15 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: A2M, OMG

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_064 not in the Motif Atlas

Geometric match to IL_4V9F_012

Geometric discrepancy: 0.2602

The information below is about IL_4V9F_012

Detailed Annotation

8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_59724.1

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-R-L-cWW

Number of instances in this motif group

1

Unit IDs

8CF5|1|AA|G|1444
8CF5|1|AA|U|1445
8CF5|1|AA|A|1446
8CF5|1|AA|G|1447
8CF5|1|AA|U|1448
8CF5|1|AA|A2M|1449
8CF5|1|AA|OMG|1450
8CF5|1|AA|C|1451
*
8CF5|1|AA|G|2353
8CF5|1|AA|C|2354
8CF5|1|AA|G|2355
8CF5|1|AA|A|2356
8CF5|1|AA|A|2357
8CF5|1|AA|A|2358
8CF5|1|AA|C|2359

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain B

60S ribosomal protein L17-A

Chain CC

5.8S ribosomal RNA; 5.8S rRNA

Chain GG

60S ribosomal protein L4-A