HL_1VY5_146

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

CAGCCUGGUAG

Length

11 nucleotides

Bulged bases

1VY5|1|CX|G|18, 1VY5|1|CX|G|19, 1VY5|1|CX|U|20

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

HL_1VY5_146 not in the Motif Atlas

Homologous match to HL_4TUE_033

Geometric discrepancy: 0.1322

The information below is about HL_4TUE_033

Detailed Annotation

tRNA D-loop

Broad Annotation

No text annotation

Motif group

HL_93616.2

Basepair signature

cWW-cWS-F-F-F-F

Number of instances in this motif group

8

Unit IDs

1VY5|1|CX|C|13
1VY5|1|CX|A|14
1VY5|1|CX|G|15
1VY5|1|CX|C|16
1VY5|1|CX|C|17
1VY5|1|CX|U|17|||A
1VY5|1|CX|G|18
1VY5|1|CX|G|19
1VY5|1|CX|U|20
1VY5|1|CX|A|21
1VY5|1|CX|G|22

Current chains

Chain CX

P-site tRNA

Nearby chains

Chain DA

Large subunit ribosomal RNA; LSU rRNA

Chain DG

50S ribosomal protein L5