J4_8VTX_001

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

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

8VTX|1|1A|U|405

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_001 not in the Motif Atlas

Homologous match to J4_9DFE_001

Geometric discrepancy: 0.0599

The information below is about J4_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_94698.1

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-cWW

Number of instances in this motif group

10

Unit IDs

8VTX|1|1A|C|268
8VTX|1|1A|U|269
*
8VTX|1|1A|G|370
8VTX|1|1A|A|371
8VTX|1|1A|G|372
8VTX|1|1A|U|373
8VTX|1|1A|A|374
8VTX|1|1A|C|375
*
8VTX|1|1A|G|399
8VTX|1|1A|G|400
8VTX|1|1A|A|401
8VTX|1|1A|A|402
8VTX|1|1A|U|403
8VTX|1|1A|C|404
8VTX|1|1A|U|405
8VTX|1|1A|G|406
*
8VTX|1|1A|U|421
8VTX|1|1A|A|422
8VTX|1|1A|A|423
8VTX|1|1A|G|424

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 11

50S ribosomal protein L28

Chain 1I

50S ribosomal protein L9