Loop J5_5JUP

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: AGAAGACC*GGAUAACUG*CUUCGAUGUC*GGUUUAG*UAGUUU
Length: 40 nucleotides
Bulged bases: 5JUP|1|B|A|2404, 5JUP|1|B|A|2817, 5JUP|1|B|U|2818, 5JUP|1|B|U|2954, 5JUP|1|B|U|2978
QA status: Valid loop

Sequence variability

R3DSVS

Structural variability across Equivalence Class

R3DMCS EC

Structural variability across Rfam

R3DMCS Rfam

Detailed Annotation: No text annotation
Broad Annotation: No text annotation
Motif group: Not in a motif group
Basepair signature: Not available
Number of instances in this motif group: 0

Unit IDs

5JUP|1|B|A|2399
5JUP|1|B|G|2400
5JUP|1|B|A|2401
5JUP|1|B|A|2402
5JUP|1|B|G|2403
5JUP|1|B|A|2404
5JUP|1|B|C|2405
5JUP|1|B|C|2406
*
5JUP|1|B|G|2815
5JUP|1|B|G|2816
5JUP|1|B|A|2817
5JUP|1|B|U|2818
5JUP|1|B|A|2819
5JUP|1|B|A|2820
5JUP|1|B|C|2821
5JUP|1|B|U|2822
5JUP|1|B|G|2823
*
5JUP|1|B|C|2867
5JUP|1|B|U|2868
5JUP|1|B|U|2869
5JUP|1|B|C|2870
5JUP|1|B|G|2871
5JUP|1|B|A|2872
5JUP|1|B|U|2873
5JUP|1|B|G|2874
5JUP|1|B|U|2875
5JUP|1|B|C|2876
*
5JUP|1|B|G|2951
5JUP|1|B|G|2952
5JUP|1|B|U|2953
5JUP|1|B|U|2954
5JUP|1|B|U|2955
5JUP|1|B|A|2956
5JUP|1|B|G|2957
*
5JUP|1|B|U|2975
5JUP|1|B|A|2976
5JUP|1|B|G|2977
5JUP|1|B|U|2978
5JUP|1|B|U|2979
5JUP|1|B|U|2980

Current chains

Chain B: 25S ribosomal RNA

Nearby chains

Chain F: uL2 (yeast L2)
Chain FA: uL15 (yeast L28)
Chain G: uL3 (yeast L3)
Chain GA: eL29 (yeast L29)
Chain H: uL4 (yeast L4)

J5_5JUP_010