J3_8CF5_032

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

AGAUGG*CGUUUCAAAGG*CACCAU

Length

23 nucleotides

Bulged bases

8CF5|1|AA|C|1556, 8CF5|1|AA|A|1558, 8CF5|1|AA|A|1580, 8CF5|1|AA|C|1581

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

J3_8CF5_032 not in the Motif Atlas

Homologous match to J3_9PN5_015

Geometric discrepancy: 0.2146

The information below is about J3_9PN5_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_53783.2

Basepair signature

cWW-tSH-tHW-F-tWW-F-tHS-F-cWW-cWW-F-tWW-F

Number of instances in this motif group

3

Unit IDs

8CF5|1|AA|A|1537
8CF5|1|AA|G|1538
8CF5|1|AA|A|1539
8CF5|1|AA|U|1540
8CF5|1|AA|G|1541
8CF5|1|AA|G|1542
*
8CF5|1|AA|C|1551
8CF5|1|AA|G|1552
8CF5|1|AA|U|1553
8CF5|1|AA|U|1554
8CF5|1|AA|U|1555
8CF5|1|AA|C|1556
8CF5|1|AA|A|1557
8CF5|1|AA|A|1558
8CF5|1|AA|A|1559
8CF5|1|AA|G|1560
8CF5|1|AA|G|1561
*
8CF5|1|AA|C|1579
8CF5|1|AA|A|1580
8CF5|1|AA|C|1581
8CF5|1|AA|C|1582
8CF5|1|AA|A|1583
8CF5|1|AA|U|1584

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain CC

5.8S ribosomal RNA; 5.8S rRNA

Chain EE

60S ribosomal protein L2-A

Chain J

60S ribosomal protein L25

Chain KK

60S ribosomal protein L8-A

Chain QQ

60S ribosomal protein L15-A

Chain V

60S ribosomal protein L37-A