IL_1VY5_190

3D structure

PDB id

1VY5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.55 Å

Loop

Sequence

GUGCCAG*CGGUAAUAC

Length

16 nucleotides

Bulged bases

1VY5|1|CA|A|532, 1VY5|1|CA|U|534, 1VY5|1|CA|A|535

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_1VY5_190 not in the Motif Atlas

Geometric match to IL_4V88_415

Geometric discrepancy: 0.1557

The information below is about IL_4V88_415

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_54177.1

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

1VY5|1|CA|G|515
1VY5|1|CA|U|516
1VY5|1|CA|G|517
1VY5|1|CA|C|518
1VY5|1|CA|C|519
1VY5|1|CA|A|520
1VY5|1|CA|G|521
*
1VY5|1|CA|C|528
1VY5|1|CA|G|529
1VY5|1|CA|G|530
1VY5|1|CA|U|531
1VY5|1|CA|A|532
1VY5|1|CA|A|533
1VY5|1|CA|U|534
1VY5|1|CA|A|535
1VY5|1|CA|C|536

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CC

30S ribosomal protein S3

Chain CD

30S ribosomal protein S4

Chain CL

30S ribosomal protein S12

Chain CV

mRNA

Chain CW

Transfer RNA; tRNA