J4_8YDH_004

3D structure

PDB id

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

Description

E.coli transcription translation coupling complex in TTC-P state 1 (subclass1) containing mRNA with 39-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin

Experimental method

ELECTRON MICROSCOPY

Resolution

4.55 Å

Loop

Sequence

GGUUC*GGUGAG*CU*AAUCGUAC

Length

21 nucleotides

Bulged bases

8YDH|1|1|G|1341

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_8YDH_004 not in the Motif Atlas

Homologous match to J4_8B0X_008

Geometric discrepancy: 0.117

The information below is about J4_8B0X_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_77353.2

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

9

Unit IDs

8YDH|1|1|G|1310
8YDH|1|1|G|1311
8YDH|1|1|U|1312
8YDH|1|1|U|1313
8YDH|1|1|C|1314
*
8YDH|1|1|G|1338
8YDH|1|1|G|1339
8YDH|1|1|U|1340
8YDH|1|1|G|1341
8YDH|1|1|A|1342
8YDH|1|1|G|1343
*
8YDH|1|1|C|1404
8YDH|1|1|U|1405
*
8YDH|1|1|A|1597
8YDH|1|1|A|1598
8YDH|1|1|U|1599
8YDH|1|1|C|1600
8YDH|1|1|G|1601
8YDH|1|1|U|1602
8YDH|1|1|A|1603
8YDH|1|1|C|1604

Current chains

Chain 1

23S rRNA

Nearby chains

Chain D

50S ribosomal protein L34

Chain t

50S ribosomal protein L23