J5_8CDL_007

3D structure

PDB id

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

Description

80S S. cerevisiae ribosome with ligands in hybrid-2 pre-translocation (PRE-H2) complex

Experimental method

ELECTRON MICROSCOPY

Resolution

2.72 Å

Loop

Sequence

CUUGU*AAAUAAC*GGAAUG*CAAU*AUAG

Length

26 nucleotides

Bulged bases

8CDL|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_8CDL_007 not in the Motif Atlas

Homologous match to J5_8C3A_018

Geometric discrepancy: 0.089

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

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