HL_5DGV_032

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

AGCAGUU

Length

7 nucleotides

Bulged bases

5DGV|1|1|G|1507, 5DGV|1|1|U|1511

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

HL_5DGV_032 not in the Motif Atlas

Homologous match to HL_5TBW_032

Geometric discrepancy: 0.059

The information below is about HL_5TBW_032

Detailed Annotation

Pseudoknot geometry with 3' bulge

Broad Annotation

No text annotation

Motif group

HL_40756.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

14

Unit IDs

5DGV|1|1|A|1506
5DGV|1|1|G|1507
5DGV|1|1|C|1508
5DGV|1|1|A|1509
5DGV|1|1|G|1510
5DGV|1|1|U|1511
5DGV|1|1|U|1512

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain M7

60S ribosomal protein L17-A

Chain M9

60S ribosomal protein L19-A

Chain O9

60S ribosomal protein L39