HL_5DGF_129

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

UCUUGAAACA

Length

10 nucleotides

Bulged bases

5DGF|1|5|C|648

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_5DGF_129 not in the Motif Atlas

Homologous match to HL_5TBW_014

Geometric discrepancy: 0.0768

The information below is about HL_5TBW_014

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_43993.1

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

141

Unit IDs

5DGF|1|5|U|640
5DGF|1|5|C|641
5DGF|1|5|U|642
5DGF|1|5|U|643
5DGF|1|5|G|644
5DGF|1|5|A|645
5DGF|1|5|A|646
5DGF|1|5|A|647
5DGF|1|5|C|648
5DGF|1|5|A|649

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l3

60S ribosomal protein L3

Chain n8

60S ribosomal protein L28

Chain o2

60S ribosomal protein L32