IL_8YDF_066

3D structure

PDB id

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

Description

E.coli transcription translation coupling complex in TTC-B state 1 (subclass 2) containing mRNA with 39-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin

Experimental method

ELECTRON MICROSCOPY

Resolution

4.6 Å

Loop

Sequence

CCGG*CG

Length

6 nucleotides

Bulged bases

8YDF|1|1|C|1838

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

IL_8YDF_066 not in the Motif Atlas

Geometric match to IL_4V9F_066

Geometric discrepancy: 0.1802

The information below is about IL_4V9F_066

Detailed Annotation

Minor groove platform, major groove intercalation

Broad Annotation

Minor groove platform, major groove intercalation

Motif group

IL_55206.1

Basepair signature

cWW-L-cWW

Number of instances in this motif group

10

Unit IDs

8YDF|1|1|C|1837
8YDF|1|1|C|1838
8YDF|1|1|G|1839
8YDF|1|1|G|1840
*
8YDF|1|1|C|1902
8YDF|1|1|G|1903

Current chains

Chain 1

23S rRNA

Nearby chains

Chain 3

Small subunit ribosomal RNA; SSU rRNA

Chain b

50S ribosomal protein L2