J4_8VTX_004

3D structure

PDB id

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

Description

Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with macrolone MCX-128, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.4 Å

Loop

Sequence

GGUUC*GGUUAG*CU*ACCCGUAC

Length

21 nucleotides

Bulged bases

8VTX|1|1A|U|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_8VTX_004 not in the Motif Atlas

Homologous match to J4_9DFE_004

Geometric discrepancy: 0.0563

The information below is about J4_9DFE_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_77353.1

Basepair signature

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

Number of instances in this motif group

8

Unit IDs

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

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 17

50S ribosomal protein L34

Chain 1X

50S ribosomal protein L23