HL_8VTX_111

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

G(5MU)(PSU)CGAUUC

Length

9 nucleotides

Bulged bases

None detected

QA status

Unknown status

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

HL_8VTX_111 not in the Motif Atlas

Homologous match to HL_6JXM_003

Geometric discrepancy: 0.1972

The information below is about HL_6JXM_003

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_33597.3

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

135

Unit IDs

8VTX|1|1y|G|53
8VTX|1|1y|5MU|54
8VTX|1|1y|PSU|55
8VTX|1|1y|C|56
8VTX|1|1y|G|57
8VTX|1|1y|A|58
8VTX|1|1y|U|59
8VTX|1|1y|U|60
8VTX|1|1y|C|61

Current chains

Chain 1y

Deacylated tRNAphe

Nearby chains

Chain 1A

Large subunit ribosomal RNA; LSU rRNA