IL_5DGF_147

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

GUA*UUUUC

Length

8 nucleotides

Bulged bases

5DGF|1|2|U|260

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

IL_5DGF_147 not in the Motif Atlas

Geometric match to IL_4V88_397

Geometric discrepancy: 0.1644

The information below is about IL_4V88_397

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_63959.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

18

Unit IDs

5DGF|1|2|G|204
5DGF|1|2|U|205
5DGF|1|2|A|206
*
5DGF|1|2|U|259
5DGF|1|2|U|260
5DGF|1|2|U|261
5DGF|1|2|U|262
5DGF|1|2|C|263

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain S4

40S ribosomal protein S4-A

Chain S8

40S ribosomal protein S8-A