J4_8UPO_006

3D structure

PDB id

8UPO (explore in PDB, NAKB, or RNA 3D Hub)

Description

Escherichia coli transcription-translation coupled complex class A (TTC-A) containing RfaH bound to ops signal, mRNA with a 21 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

5.5 Å

Loop

Sequence

CC*GAGUAG*UGAAUAUG*CAAG

Length

20 nucleotides

Bulged bases

8UPO|1|a|U|405

QA status

Unknown status

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_8UPO_006 not in the Motif Atlas

Homologous match to J4_5J7L_018

Geometric discrepancy: 0.1036

The information below is about J4_5J7L_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_45801.6

Basepair signature

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

Number of instances in this motif group

7

Unit IDs

8UPO|1|a|C|268
8UPO|1|a|C|269
*
8UPO|1|a|G|370
8UPO|1|a|A|371
8UPO|1|a|G|372
8UPO|1|a|U|373
8UPO|1|a|A|374
8UPO|1|a|G|375
*
8UPO|1|a|U|399
8UPO|1|a|G|400
8UPO|1|a|A|401
8UPO|1|a|A|402
8UPO|1|a|U|403
8UPO|1|a|A|404
8UPO|1|a|U|405
8UPO|1|a|G|406
*
8UPO|1|a|C|421
8UPO|1|a|A|422
8UPO|1|a|A|423
8UPO|1|a|G|424

Current chains

Chain a

23S rRNA

Nearby chains

Chain c

50S ribosomal protein L28

Chain r

50S ribosomal protein L9