IL_1VY6_360

3D structure

PDB id

1VY6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

CC*GAAG

Length

6 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_1VY6_360 not in the Motif Atlas

Homologous match to IL_4V9F_103

Geometric discrepancy: 0.0922

The information below is about IL_4V9F_103

Detailed Annotation

Major groove minor groove platform; mini C-loop

Broad Annotation

No text annotation

Motif group

IL_68140.4

Basepair signature

cWW-cSH-cWW

Number of instances in this motif group

18

Unit IDs

1VY6|1|BB|C|30
1VY6|1|BB|C|31
*
1VY6|1|BB|G|51
1VY6|1|BB|A|52
1VY6|1|BB|A|53
1VY6|1|BB|G|54

Current chains

Chain BB

5S Ribosomal RNA

Nearby chains

Chain BG

50S ribosomal protein L5

Chain BS

50S ribosomal protein L18