J4_9SS6_004

3D structure

PDB id

9SS6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

70S ribosome from RimM-KO

Experimental method

ELECTRON MICROSCOPY

Resolution

2.6 Å

Loop

Sequence

CC*GAGUAG*UGAAUAUG*CAAG

Length

20 nucleotides

Bulged bases

9SS6|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_9SS6_004 not in the Motif Atlas

Homologous match to J4_7A0S_001

Geometric discrepancy: 0.2444

The information below is about J4_7A0S_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_94698.1

Basepair signature

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

Number of instances in this motif group

10

Unit IDs

9SS6|1|D2|C|268
9SS6|1|D2|C|269
*
9SS6|1|D2|G|370
9SS6|1|D2|A|371
9SS6|1|D2|G|372
9SS6|1|D2|U|373
9SS6|1|D2|A|374
9SS6|1|D2|G|375
*
9SS6|1|D2|U|399
9SS6|1|D2|G|400
9SS6|1|D2|A|401
9SS6|1|D2|A|402
9SS6|1|D2|U|403
9SS6|1|D2|A|404
9SS6|1|D2|U|405
9SS6|1|D2|G|406
*
9SS6|1|D2|C|421
9SS6|1|D2|A|422
9SS6|1|D2|A|423
9SS6|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