J3_1VY5_030

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

UG*CGCCGAUGG*CAG

Length

14 nucleotides

Bulged bases

1VY5|1|CA|U|723

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_1VY5_030 not in the Motif Atlas

Homologous match to J3_5J7L_003

Geometric discrepancy: 0.1112

The information below is about J3_5J7L_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_11934.4

Basepair signature

cWW-cWW-tWW-cWW-F-F-F-F-F

Number of instances in this motif group

4

Unit IDs

1VY5|1|CA|U|672
1VY5|1|CA|G|673
*
1VY5|1|CA|C|717
1VY5|1|CA|G|718
1VY5|1|CA|C|719
1VY5|1|CA|C|720
1VY5|1|CA|G|721
1VY5|1|CA|A|722
1VY5|1|CA|U|723
1VY5|1|CA|G|724
1VY5|1|CA|G|725
*
1VY5|1|CA|C|732
1VY5|1|CA|A|733
1VY5|1|CA|G|734

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CF

30S ribosomal protein S6

Chain CK

30S ribosomal protein S11

Chain CO

30S ribosomal protein S15

Chain CR

30S ribosomal protein S18

Chain DD

50S ribosomal protein L2