HL_5DGV_007

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

GUGAGAAUC

Length

9 nucleotides

Bulged bases

5DGV|1|1|G|218, 5DGV|1|1|A|219, 5DGV|1|1|G|220

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_007 not in the Motif Atlas

Homologous match to HL_5TBW_007

Geometric discrepancy: 0.0571

The information below is about HL_5TBW_007

Detailed Annotation

T-loop with unstacked turn

Broad Annotation

T-loop

Motif group

HL_08002.12

Basepair signature

cWW-cWW-F-tWH

Number of instances in this motif group

16

Unit IDs

5DGV|1|1|G|216
5DGV|1|1|U|217
5DGV|1|1|G|218
5DGV|1|1|A|219
5DGV|1|1|G|220
5DGV|1|1|A|221
5DGV|1|1|A|222
5DGV|1|1|U|223
5DGV|1|1|C|224

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain 4

5.8S ribosomal RNA; 5.8S rRNA

Chain L4

60S ribosomal protein L4-A

Chain N6

60S ribosomal protein L26-A