J5_5MDZ_008

3D structure

PDB id

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

Description

Structure of the 70S ribosome (empty A site)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

CUGG*CGUG*CUUUCAG*CAGAAGAAG*CAAG

Length

28 nucleotides

Bulged bases

5MDZ|1|2|U|439

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_5MDZ_008 not in the Motif Atlas

Homologous match to J5_5J7L_002

Geometric discrepancy: 0.0913

The information below is about J5_5J7L_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_67416.1

Basepair signature

cWW-F-F-F-cWW-tHW-F-tHW-tSS-cWW-cHW-cWW-F-cWW-F-cWW-F-F

Number of instances in this motif group

1

Unit IDs

5MDZ|1|2|C|36
5MDZ|1|2|U|37
5MDZ|1|2|G|38
5MDZ|1|2|G|39
*
5MDZ|1|2|C|403
5MDZ|1|2|G|404
5MDZ|1|2|U|405
5MDZ|1|2|G|406
*
5MDZ|1|2|C|436
5MDZ|1|2|U|437
5MDZ|1|2|U|438
5MDZ|1|2|U|439
5MDZ|1|2|C|440
5MDZ|1|2|A|441
5MDZ|1|2|G|442
*
5MDZ|1|2|C|492
5MDZ|1|2|A|493
5MDZ|1|2|G|494
5MDZ|1|2|A|495
5MDZ|1|2|A|496
5MDZ|1|2|G|497
5MDZ|1|2|A|498
5MDZ|1|2|A|499
5MDZ|1|2|G|500
*
5MDZ|1|2|C|545
5MDZ|1|2|A|546
5MDZ|1|2|A|547
5MDZ|1|2|G|548

Current chains

Chain 2

16S ribosomal RNA

Nearby chains

Chain i

30S ribosomal protein S4

Chain q

30S ribosomal protein S12