J5_8VTX_018

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

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 nucleotides

Bulged bases

None detected

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

J5_8VTX_018 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.0706

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

8VTX|1|2a|C|36
8VTX|1|2a|U|37
8VTX|1|2a|G|38
8VTX|1|2a|G|39
*
8VTX|1|2a|C|403
8VTX|1|2a|U|404
8VTX|1|2a|U|405
8VTX|1|2a|G|406
*
8VTX|1|2a|C|436
8VTX|1|2a|U|437
8VTX|1|2a|G|438
8VTX|1|2a|A|439
8VTX|1|2a|A|441
8VTX|1|2a|C|442
*
8VTX|1|2a|G|492
8VTX|1|2a|G|493
8VTX|1|2a|U|494
8VTX|1|2a|A|495
8VTX|1|2a|A|496
8VTX|1|2a|U|498
8VTX|1|2a|A|499
8VTX|1|2a|G|500
*
8VTX|1|2a|C|545
8VTX|1|2a|G|546
8VTX|1|2a|A|547
8VTX|1|2a|G|548

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4

Chain 2l

30S ribosomal protein S12