Loop J5_9YDC

3D structure

PDB id: 9YDC (explore in PDB, NAKB, or RNA 3D Hub)
Description: Eukaryotic 80S ribosome with A/P, P/E tRNAs from uL16 P-site loop mutants in bypass condition
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.02 Å

Loop

Sequence: AGAAGACC*GGAUAACUG*CUUCGAUGUC*GGUUUAG*UAGUUU
Length: 40 nucleotides
Bulged bases: 9YDC|1|A|A|2404, 9YDC|1|A|A|2817, 9YDC|1|A|U|2818, 9YDC|1|A|G|2874, 9YDC|1|A|U|2978, 9YDC|1|A|U|2979
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

9YDC|1|A|A|2399
9YDC|1|A|G|2400
9YDC|1|A|A|2401
9YDC|1|A|A|2402
9YDC|1|A|G|2403
9YDC|1|A|A|2404
9YDC|1|A|C|2405
9YDC|1|A|C|2406
*
9YDC|1|A|G|2815
9YDC|1|A|G|2816
9YDC|1|A|A|2817
9YDC|1|A|U|2818
9YDC|1|A|A|2819
9YDC|1|A|A|2820
9YDC|1|A|C|2821
9YDC|1|A|U|2822
9YDC|1|A|G|2823
*
9YDC|1|A|C|2867
9YDC|1|A|U|2868
9YDC|1|A|U|2869
9YDC|1|A|C|2870
9YDC|1|A|G|2871
9YDC|1|A|A|2872
9YDC|1|A|U|2873
9YDC|1|A|G|2874
9YDC|1|A|U|2875
9YDC|1|A|C|2876
*
9YDC|1|A|G|2951
9YDC|1|A|G|2952
9YDC|1|A|U|2953
9YDC|1|A|U|2954
9YDC|1|A|U|2955
9YDC|1|A|A|2956
9YDC|1|A|G|2957
*
9YDC|1|A|U|2975
9YDC|1|A|A|2976
9YDC|1|A|G|2977
9YDC|1|A|U|2978
9YDC|1|A|U|2979
9YDC|1|A|U|2980

Current chains

Chain A: 25S RNA

Nearby chains

Chain LD: 60S ribosomal protein L2-A
Chain LE: 60S ribosomal protein L3
Chain LF: 60S ribosomal protein L4-A
Chain LR: 60S ribosomal protein L17-A
Chain Lc: 60S ribosomal protein L28
Chain Ld: 60S ribosomal protein L29
Chain m: Transfer RNA; tRNA

J5_9YDC_005