Loop J8_5VP2

3D structure

PDB id: 5VP2 (explore in PDB, NAKB, or RNA 3D Hub)
Description: Crystal structure of the Thermus thermophilus 70S ribosome in complex with madumycin II and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution
Experimental method: X-RAY DIFFRACTION
Resolution: 2.8 Å

Loop

Sequence: AUGGUAAG*UACAAGC*GAACUG*CUAC*GCGCAG*CCAC*GGUAAG*CGAGGU
Length: 47 nucleotides
Bulged bases: 5VP2|1|1A|G|555, 5VP2|1|1A|C|2043, 5VP2|1|1A|A|2803
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

5VP2|1|1A|A|8
5VP2|1|1A|U|9
5VP2|1|1A|G|10
5VP2|1|1A|G|11
5VP2|1|1A|U|12
5VP2|1|1A|A|13
5VP2|1|1A|A|14
5VP2|1|1A|G|15
*
5VP2|1|1A|U|550
5VP2|1|1A|A|551
5VP2|1|1A|C|552
5VP2|1|1A|A|553
5VP2|1|1A|A|554
5VP2|1|1A|G|555
5VP2|1|1A|C|556
*
5VP2|1|1A|G|2040
5VP2|1|1A|A|2041
5VP2|1|1A|A|2042
5VP2|1|1A|C|2043
5VP2|1|1A|U|2044
5VP2|1|1A|G|2045
*
5VP2|1|1A|C|2062
5VP2|1|1A|U|2063
5VP2|1|1A|A|2064
5VP2|1|1A|C|2065
*
5VP2|1|1A|G|2637
5VP2|1|1A|C|2638
5VP2|1|1A|G|2639
5VP2|1|1A|C|2640
5VP2|1|1A|A|2641
5VP2|1|1A|G|2642
*
5VP2|1|1A|C|2801
5VP2|1|1A|C|2802
5VP2|1|1A|A|2803
5VP2|1|1A|C|2804
*
5VP2|1|1A|G|2816
5VP2|1|1A|G|2817
5VP2|1|1A|U|2818
5VP2|1|1A|A|2819
5VP2|1|1A|A|2820
5VP2|1|1A|G|2821
*
5VP2|1|1A|C|2899
5VP2|1|1A|G|2900
5VP2|1|1A|A|2901
5VP2|1|1A|G|2902
5VP2|1|1A|G|2903
5VP2|1|1A|U|2904

Current chains

Chain 1A: 23S Ribosomal RNA

Nearby chains

Chain 15: 50S ribosomal protein L32
Chain 1E: 50S ribosomal protein L3
Chain 1N: 50S ribosomal protein L13
Chain 1U: 50S ribosomal protein L20
Chain 1W: 50S ribosomal protein L22

J8_5VP2_001