IL_8VTX_213

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

GGUAAAG*CGAAAAUGAUCGGGGC

Length

23 nucleotides

Bulged bases

8VTX|1|2A|U|1026, 8VTX|1|2A|A|1127, 8VTX|1|2A|U|1130

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

IL_8VTX_213 not in the Motif Atlas

Geometric match to IL_7RQB_040

Geometric discrepancy: 0.0478

The information below is about IL_7RQB_040

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_50715.1

Basepair signature

cWW-tSH-tHH-L-R-L-R-L-tWW-L-cWW-L-L-L-R-L

Number of instances in this motif group

4

Unit IDs

8VTX|1|2A|G|1024
8VTX|1|2A|G|1025
8VTX|1|2A|U|1026
8VTX|1|2A|A|1027
8VTX|1|2A|A|1028
8VTX|1|2A|A|1029
8VTX|1|2A|G|1030
*
8VTX|1|2A|C|1124
8VTX|1|2A|G|1125
8VTX|1|2A|A|1126
8VTX|1|2A|A|1127
8VTX|1|2A|A|1128
8VTX|1|2A|A|1129
8VTX|1|2A|U|1130
8VTX|1|2A|G|1131
8VTX|1|2A|A|1132
8VTX|1|2A|U|1133
8VTX|1|2A|C|1135
8VTX|1|2A|G|1136
8VTX|1|2A|G|1137
8VTX|1|2A|G|1138
8VTX|1|2A|G|1139
8VTX|1|2A|C|1140

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L36

Chain 2B

5S ribosomal RNA; 5S rRNA

Chain 2E

50S ribosomal protein L3

Chain 2N

50S ribosomal protein L13

Chain 2Q

50S ribosomal protein L16