IL_1VY6_077

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

GAAAC*GAGAUAGC

Length

13 nucleotides

Bulged bases

1VY6|1|BA|G|801, 1VY6|1|BA|G|805

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_077 not in the Motif Atlas

Geometric match to IL_7RQB_018

Geometric discrepancy: 0.049

The information below is about IL_7RQB_018

Detailed Annotation

tHW-tHW cross-strand stack

Broad Annotation

No text annotation

Motif group

IL_17470.6

Basepair signature

cWW-tWW-L-R-tWH-L-cWW

Number of instances in this motif group

7

Unit IDs

1VY6|1|BA|G|674
1VY6|1|BA|A|675
1VY6|1|BA|A|676
1VY6|1|BA|A|677
1VY6|1|BA|C|678
*
1VY6|1|BA|G|799
1VY6|1|BA|A|800
1VY6|1|BA|G|801
1VY6|1|BA|A|802
1VY6|1|BA|U|803
1VY6|1|BA|A|804
1VY6|1|BA|G|805
1VY6|1|BA|C|806

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain BF

50S ribosomal protein L4

Chain BP

50S ribosomal protein L15