J5_5MDY_008

3D structure

PDB id

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

Description

Structure of ArfA and TtRF2 bound to the 70S ribosome (pre-accommodated state)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.35 Å

Loop

Sequence

CUGG*CGUG*CUUUCAG*CAGAAGAAG*CAAG

Length

28 nucleotides

Bulged bases

5MDY|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_5MDY_008 not in the Motif Atlas

Homologous match to J5_5J7L_002

Geometric discrepancy: 0.0937

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

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