J3_8VTX_029

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

UUUAAUUC*GAAGAACCUUAC*GGCGA

Length

25 nucleotides

Bulged bases

8VTX|1|2a|A|975, 8VTX|1|2a|G|976

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

J3_8VTX_029 not in the Motif Atlas

Homologous match to J3_4LFB_004

Geometric discrepancy: 0.0592

The information below is about J3_4LFB_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_88451.1

Basepair signature

cWW-tWW-F-F-F-F-F-tSS-cWW-F-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

5

Unit IDs

8VTX|1|2a|U|955
8VTX|1|2a|U|956
8VTX|1|2a|U|957
8VTX|1|2a|A|958
8VTX|1|2a|A|959
8VTX|1|2a|U|960
8VTX|1|2a|U|961
8VTX|1|2a|C|962
*
8VTX|1|2a|G|973
8VTX|1|2a|A|974
8VTX|1|2a|A|975
8VTX|1|2a|G|976
8VTX|1|2a|A|977
8VTX|1|2a|A|978
8VTX|1|2a|C|979
8VTX|1|2a|C|980
8VTX|1|2a|U|981
8VTX|1|2a|U|982
8VTX|1|2a|A|983
8VTX|1|2a|C|984
*
8VTX|1|2a|G|1221
8VTX|1|2a|G|1222
8VTX|1|2a|C|1223
8VTX|1|2a|G|1224
8VTX|1|2a|A|1225

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2j

30S ribosomal protein S10

Chain 2m

30S ribosomal protein S13

Chain 2n

30S ribosomal protein S14 type Z

Chain 2s

30S ribosomal protein S19

Chain 2w

Transfer RNA; tRNA