J3_1VY6_017

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

CGAGCUA*UAG*CGAG

Length

14 nucleotides

Bulged bases

1VY6|1|BA|G|686, 1VY6|1|BA|G|792

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

J3_1VY6_017 not in the Motif Atlas

Homologous match to J3_7RQB_004

Geometric discrepancy: 0.0487

The information below is about J3_7RQB_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_39238.4

Basepair signature

cWW-tWH-cWW-tSW-F-F-cWW

Number of instances in this motif group

7

Unit IDs

1VY6|1|BA|C|683
1VY6|1|BA|G|684
1VY6|1|BA|A|685
1VY6|1|BA|G|686
1VY6|1|BA|C|687
1VY6|1|BA|U|688
1VY6|1|BA|A|689
*
1VY6|1|BA|U|773
1VY6|1|BA|A|774
1VY6|1|BA|G|775
*
1VY6|1|BA|C|791
1VY6|1|BA|G|792
1VY6|1|BA|A|793
1VY6|1|BA|G|794

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain B7

50S ribosomal protein L34

Chain BD

50S ribosomal protein L2