IL_10PX_303

3D structure

PDB id

10PX (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with benzoxaborole derivative of azithromycin (AZI-BB2), mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.45 Å

Loop

Sequence

G(PSU)GCCAG*CGGUAAUAC

Length

16 nucleotides

Bulged bases

10PX|1|2a|A|532, 10PX|1|2a|U|534, 10PX|1|2a|A|535

QA status

Modified nucleotides: PSU

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_10PX_303 not in the Motif Atlas

Homologous match to IL_6CZR_133

Geometric discrepancy: 0.2601

The information below is about IL_6CZR_133

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_54177.3

Basepair signature

cWW-cSW-tWH-L-R-L-R-tHS-cWW

Number of instances in this motif group

5

Unit IDs

10PX|1|2a|G|515
10PX|1|2a|PSU|516
10PX|1|2a|G|517
10PX|1|2a|C|518
10PX|1|2a|C|519
10PX|1|2a|A|520
10PX|1|2a|G|521
*
10PX|1|2a|C|528
10PX|1|2a|G|529
10PX|1|2a|G|530
10PX|1|2a|U|531
10PX|1|2a|A|532
10PX|1|2a|A|533
10PX|1|2a|U|534
10PX|1|2a|A|535
10PX|1|2a|C|536

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2c

30S ribosomal protein S3

Chain 2d

30S ribosomal protein S4

Chain 2l

30S ribosomal protein S12

Chain 2v

MET-PHE-mRNA

Chain 2w

Transfer RNA; tRNA