IL_5DGV_087

3D structure

PDB id

5DGV (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

3.1 Å

Loop

Sequence

GAAUG*CGC

Length

8 nucleotides

Bulged bases

None detected

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_5DGV_087 not in the Motif Atlas

Homologous match to IL_5TBW_087

Geometric discrepancy: 0.1495

The information below is about IL_5TBW_087

Detailed Annotation

Major groove platform with extra pair

Broad Annotation

Major groove platform

Motif group

IL_63450.5

Basepair signature

cWW-cHS-cWW-cWW-cWW

Number of instances in this motif group

7

Unit IDs

5DGV|1|1|G|2206
5DGV|1|1|A|2207
5DGV|1|1|A|2208
5DGV|1|1|U|2209
5DGV|1|1|G|2210
*
5DGV|1|1|C|2235
5DGV|1|1|G|2236
5DGV|1|1|C|2237

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain 2

Small subunit ribosomal RNA; SSU rRNA