J7_5D8B_001

3D structure

PDB id

5D8B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch

Experimental method

X-RAY DIFFRACTION

Resolution

3.63 Å

Loop

Sequence

GAUGGUAAG*UACAAGC*GAACUG*CUAC*GCGCAGG*CCCACGGCGUCAAGCCGGUAAG*CGAGGUC

Length

62 nucleotides

Bulged bases

5D8B|1|VC|G|530, 5D8B|1|VC|C|2021, 5D8B|1|VC|A|2790, 5D8B|1|VC|U|2797

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

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

5D8B|1|VC|G|7
5D8B|1|VC|A|8
5D8B|1|VC|U|9
5D8B|1|VC|G|10
5D8B|1|VC|G|11
5D8B|1|VC|U|12
5D8B|1|VC|A|13
5D8B|1|VC|A|14
5D8B|1|VC|G|15
*
5D8B|1|VC|U|525
5D8B|1|VC|A|526
5D8B|1|VC|C|527
5D8B|1|VC|A|528
5D8B|1|VC|A|529
5D8B|1|VC|G|530
5D8B|1|VC|C|531
*
5D8B|1|VC|G|2018
5D8B|1|VC|A|2019
5D8B|1|VC|A|2020
5D8B|1|VC|C|2021
5D8B|1|VC|U|2022
5D8B|1|VC|G|2023
*
5D8B|1|VC|C|2040
5D8B|1|VC|U|2041
5D8B|1|VC|A|2042
5D8B|1|VC|C|2043
*
5D8B|1|VC|G|2625
5D8B|1|VC|C|2626
5D8B|1|VC|G|2627
5D8B|1|VC|C|2628
5D8B|1|VC|A|2629
5D8B|1|VC|G|2630
5D8B|1|VC|G|2631
*
5D8B|1|VC|C|2787
5D8B|1|VC|C|2788
5D8B|1|VC|C|2789
5D8B|1|VC|A|2790
5D8B|1|VC|C|2791
5D8B|1|VC|G|2792
5D8B|1|VC|G|2793
5D8B|1|VC|C|2794
5D8B|1|VC|G|2795
5D8B|1|VC|U|2797
5D8B|1|VC|C|2798
5D8B|1|VC|A|2799
5D8B|1|VC|A|2801
5D8B|1|VC|G|2802
5D8B|1|VC|C|2803
5D8B|1|VC|C|2804
5D8B|1|VC|G|2805
5D8B|1|VC|G|2807
5D8B|1|VC|U|2808
5D8B|1|VC|A|2809
5D8B|1|VC|A|2810
5D8B|1|VC|G|2811
*
5D8B|1|VC|C|2889
5D8B|1|VC|G|2891
5D8B|1|VC|A|2892
5D8B|1|VC|G|2893
5D8B|1|VC|G|2894
5D8B|1|VC|U|2895
5D8B|1|VC|C|2896

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L3

Chain H

50S ribosomal protein L13

Chain O

50S ribosomal protein L20

Chain Q

50S ribosomal protein L22

Chain Y

50S ribosomal protein L32