HL_8YDJ_105

3D structure

PDB id

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

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

5.1 Å

Loop

Sequence

CAGCCUGGUAG

Length

11 nucleotides

Bulged bases

8YDJ|1|6|C|16, 8YDJ|1|6|C|17, 8YDJ|1|6|U|17|||A, 8YDJ|1|6|G|18, 8YDJ|1|6|G|19, 8YDJ|1|6|U|20

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

HL_8YDJ_105 not in the Motif Atlas

Geometric match to HL_3WQY_001

Geometric discrepancy: 0.2218

The information below is about HL_3WQY_001

Detailed Annotation

tRNA D-loop

Broad Annotation

tRNA D-loop

Motif group

HL_57684.1

Basepair signature

cWW-F-F

Number of instances in this motif group

4

Unit IDs

8YDJ|1|6|C|13
8YDJ|1|6|A|14
8YDJ|1|6|G|15
8YDJ|1|6|C|16
8YDJ|1|6|C|17
8YDJ|1|6|U|17|||A
8YDJ|1|6|G|18
8YDJ|1|6|G|19
8YDJ|1|6|U|20
8YDJ|1|6|A|21
8YDJ|1|6|G|22

Current chains

Chain 6

tRNA(fMet)

Nearby chains

Chain 1

Large subunit ribosomal RNA; LSU rRNA