J3_5DGF_069

3D structure

PDB id

5DGF (explore in PDB, NAKB, or RNA 3D Hub)

Description

Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

AGAUUAAG*CGCGCAAAU*AGU

Length

20 nucleotides

Bulged bases

5DGF|1|2|A|46, 5DGF|1|2|A|47

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_5DGF_069 not in the Motif Atlas

Homologous match to J3_8P9A_069

Geometric discrepancy: 0.0851

The information below is about J3_8P9A_069

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_63856.1

Basepair signature

cWW-cWW-cSW-F-cWW-F-tHH-F-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

5DGF|1|2|A|41
5DGF|1|2|G|42
5DGF|1|2|A|43
5DGF|1|2|U|44
5DGF|1|2|U|45
5DGF|1|2|A|46
5DGF|1|2|A|47
5DGF|1|2|G|48
*
5DGF|1|2|C|431
5DGF|1|2|G|432
5DGF|1|2|C|433
5DGF|1|2|G|434
5DGF|1|2|C|435
5DGF|1|2|A|436
5DGF|1|2|A|437
5DGF|1|2|A|438
5DGF|1|2|U|439
*
5DGF|1|2|A|464
5DGF|1|2|G|465
5DGF|1|2|U|466

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain D3

40S ribosomal protein S23-A

Chain S8

40S ribosomal protein S8-A

Chain S9

40S ribosomal protein S9-A