J4_9SS4_001

3D structure

PDB id

9SS4 (explore in PDB, NAKB, or RNA 3D Hub)

Description

pre-50S ribosomal subunit in rimM-KO with RsfS (-H68)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.7 Å

Loop

Sequence

CC*GAGUAG*UGAAUAUG*CAAG

Length

20 nucleotides

Bulged bases

9SS4|1|D2|U|405

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

J4_9SS4_001 not in the Motif Atlas

Homologous match to J4_7A0S_001

Geometric discrepancy: 0.316

The information below is about J4_7A0S_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_94698.2

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-cWW

Number of instances in this motif group

11

Unit IDs

9SS4|1|D2|C|268
9SS4|1|D2|C|269
*
9SS4|1|D2|G|370
9SS4|1|D2|A|371
9SS4|1|D2|G|372
9SS4|1|D2|U|373
9SS4|1|D2|A|374
9SS4|1|D2|G|375
*
9SS4|1|D2|U|399
9SS4|1|D2|G|400
9SS4|1|D2|A|401
9SS4|1|D2|A|402
9SS4|1|D2|U|403
9SS4|1|D2|A|404
9SS4|1|D2|U|405
9SS4|1|D2|G|406
*
9SS4|1|D2|C|421
9SS4|1|D2|A|422
9SS4|1|D2|A|423
9SS4|1|D2|G|424

Current chains

Chain D2

23S Ribosomal RNA

Nearby chains

Chain B1

Large ribosomal subunit protein bL28

Chain BI

Large ribosomal subunit protein bL9