IL_1VY5_230

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

CGGGAG*CAG

Length

9 nucleotides

Bulged bases

None detected

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_230 not in the Motif Atlas

Homologous match to IL_6CZR_172

Geometric discrepancy: 0.4239

The information below is about IL_6CZR_172

Detailed Annotation

Isolated basepair with bulged bases

Broad Annotation

Isolated basepair with bulged bases

Motif group

IL_97255.3

Basepair signature

cWW-tSH-L-cWW-L

Number of instances in this motif group

5

Unit IDs

1VY5|1|CA|C|1440
1VY5|1|CA|G|1441
1VY5|1|CA|G|1442
1VY5|1|CA|G|1442|||A
1VY5|1|CA|A|1442|||B
1VY5|1|CA|G|1443
*
1VY5|1|CA|C|1459
1VY5|1|CA|A|1460
1VY5|1|CA|G|1461

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CT

30S ribosomal protein S20

Chain DA

Large subunit ribosomal RNA; LSU rRNA

Chain DT

50S ribosomal protein L19