IL_1VY5_034

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

GGAGUACG*UGAAAC

Length

14 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_1VY5_034 not in the Motif Atlas

Homologous match to IL_4LFB_034

Geometric discrepancy: 0.0692

The information below is about IL_4LFB_034

Detailed Annotation

8x6 Sarcin-Ricin with inserted Y; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_84044.1

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW-L

Number of instances in this motif group

5

Unit IDs

1VY5|1|AA|G|887
1VY5|1|AA|G|888
1VY5|1|AA|A|889
1VY5|1|AA|G|890
1VY5|1|AA|U|891
1VY5|1|AA|A|892
1VY5|1|AA|C|893
1VY5|1|AA|G|894
*
1VY5|1|AA|U|905
1VY5|1|AA|G|906
1VY5|1|AA|A|907
1VY5|1|AA|A|908
1VY5|1|AA|A|909
1VY5|1|AA|C|910

Current chains

Chain AA

16S Ribosomal RNA

Nearby chains

Chain AL

30S ribosomal protein S12

Chain AQ

30S ribosomal protein S17