J5_8UPO_004

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

CGAUGAAG*CGAAUG*CA*UAU*AGG

Length

22 nucleotides

Bulged bases

8UPO|1|a|U|50

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

J5_8UPO_004 not in the Motif Atlas

Homologous match to J5_5J7L_013

Geometric discrepancy: 0.0462

The information below is about J5_5J7L_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

8UPO|1|a|C|47
8UPO|1|a|G|48
8UPO|1|a|A|49
8UPO|1|a|U|50
8UPO|1|a|G|51
8UPO|1|a|A|52
8UPO|1|a|A|53
8UPO|1|a|G|54
*
8UPO|1|a|C|116
8UPO|1|a|G|117
8UPO|1|a|A|118
8UPO|1|a|A|119
8UPO|1|a|U|120
8UPO|1|a|G|121
*
8UPO|1|a|C|130
8UPO|1|a|A|131
*
8UPO|1|a|U|148
8UPO|1|a|A|149
8UPO|1|a|U|150
*
8UPO|1|a|A|176
8UPO|1|a|G|177
8UPO|1|a|G|178

Current chains

Chain a

23S rRNA

Nearby chains

Chain m

50S ribosomal protein L34