J5_8K82_007

3D structure

PDB id

8K82 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the yeast 80S ribosome with tigecycline, Not5 and P-site tRNA

Experimental method

ELECTRON MICROSCOPY

Resolution

3 Å

Loop

Sequence

CUUGU*AAAUAAC*GGAAUG*CAAU*AUAG

Length

26 nucleotides

Bulged bases

8K82|1|C2|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_8K82_007 not in the Motif Atlas

Homologous match to J5_8C3A_018

Geometric discrepancy: 0.073

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

8K82|1|C2|C|31
8K82|1|C2|U|32
8K82|1|C2|U|33
8K82|1|C2|G|34
8K82|1|C2|U|35
*
8K82|1|C2|A|473
8K82|1|C2|A|474
8K82|1|C2|A|475
8K82|1|C2|U|476
8K82|1|C2|A|477
8K82|1|C2|A|478
8K82|1|C2|C|479
*
8K82|1|C2|G|509
8K82|1|C2|G|510
8K82|1|C2|A|511
8K82|1|C2|A|512
8K82|1|C2|U|513
8K82|1|C2|G|514
*
8K82|1|C2|C|543
8K82|1|C2|A|544
8K82|1|C2|A|545
8K82|1|C2|U|546
*
8K82|1|C2|A|592
8K82|1|C2|U|593
8K82|1|C2|A|594
8K82|1|C2|G|595

Current chains

Chain C2

18S rRNA

Nearby chains

Chain SJ

40S ribosomal protein S9-A

Chain SX

40S ribosomal protein S23-A

Chain Se

40S ribosomal protein S30-A