J5_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

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 nucleotides

Bulged bases

None detected

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

J5_5D8B_001 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.112

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

5D8B|1|UC|C|36
5D8B|1|UC|U|37
5D8B|1|UC|G|38
5D8B|1|UC|G|39
*
5D8B|1|UC|C|403
5D8B|1|UC|U|404
5D8B|1|UC|U|405
5D8B|1|UC|G|406
*
5D8B|1|UC|C|436
5D8B|1|UC|U|437
5D8B|1|UC|G|438
5D8B|1|UC|A|439
5D8B|1|UC|A|440
5D8B|1|UC|C|442
*
5D8B|1|UC|G|492
5D8B|1|UC|G|493
5D8B|1|UC|U|494
5D8B|1|UC|A|495
5D8B|1|UC|A|496
5D8B|1|UC|U|497
5D8B|1|UC|A|498
5D8B|1|UC|G|500
*
5D8B|1|UC|C|545
5D8B|1|UC|G|546
5D8B|1|UC|A|547
5D8B|1|UC|G|548

Current chains

Chain UC

16S ribosomal RNA

Nearby chains

Chain BB

50S ribosomal protein L9

Chain EA

30S ribosomal protein S4

Chain MA

30S ribosomal protein S12