J5_8CKU_007

3D structure

PDB id

8CKU (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 absence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

3.11 Å

Loop

Sequence

CUUGU*AAAUAAC*GGAAUG*CAAU*AUAG

Length

26 nucleotides

Bulged bases

8CKU|1|c|A|544

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

J5_8CKU_007 not in the Motif Atlas

Homologous match to J5_8C3A_018

Geometric discrepancy: 0.1398

The information below is about J5_8C3A_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_19320.1

Basepair signature

cWW-F-F-F-F-F-cWW-cWW-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

1

Unit IDs

8CKU|1|c|C|31
8CKU|1|c|U|32
8CKU|1|c|U|33
8CKU|1|c|G|34
8CKU|1|c|U|35
*
8CKU|1|c|A|473
8CKU|1|c|A|474
8CKU|1|c|A|475
8CKU|1|c|U|476
8CKU|1|c|A|477
8CKU|1|c|A|478
8CKU|1|c|C|479
*
8CKU|1|c|G|509
8CKU|1|c|G|510
8CKU|1|c|A|511
8CKU|1|c|A|512
8CKU|1|c|U|513
8CKU|1|c|G|514
*
8CKU|1|c|C|543
8CKU|1|c|A|544
8CKU|1|c|A|545
8CKU|1|c|U|546
*
8CKU|1|c|A|592
8CKU|1|c|U|593
8CKU|1|c|A|594
8CKU|1|c|G|595

Current chains

Chain c

18S ribosomal RNA

Nearby chains

Chain 6

40S ribosomal protein S30-A

Chain m

40S ribosomal protein S9-A

Chain z

40S ribosomal protein S23-A