HL_5JUP_040

3D structure

PDB id

5JUP (explore in PDB, NAKB, or RNA 3D Hub)

Description

Saccharomyces cerevisiae 80S ribosome bound with elongation factor eEF2-GDP-sordarin and Taura Syndrome Virus IRES, Structure II (mid-rotated 40S subunit)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.5 Å

Loop

Sequence

UUGGAACA

Length

8 nucleotides

Bulged bases

5JUP|1|B|C|200

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_5JUP_040 not in the Motif Atlas

Homologous match to HL_8C3A_005

Geometric discrepancy: 0.1247

The information below is about HL_8C3A_005

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_58705.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

5JUP|1|B|U|194
5JUP|1|B|U|195
5JUP|1|B|G|196
5JUP|1|B|G|197
5JUP|1|B|A|198
5JUP|1|B|A|199
5JUP|1|B|C|200
5JUP|1|B|A|201

Current chains

Chain B

25S ribosomal RNA

Nearby chains

Chain DA

uL24 (yeast L26)

Chain H

uL4 (yeast L4)

Chain JA

eL32 (yeast L32)