IL_1VY6_203

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

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_1VY6_203 not in the Motif Atlas

Homologous match to IL_4LFB_034

Geometric discrepancy: 0.085

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

1VY6|1|CA|G|887
1VY6|1|CA|G|888
1VY6|1|CA|A|889
1VY6|1|CA|G|890
1VY6|1|CA|U|891
1VY6|1|CA|A|892
1VY6|1|CA|C|893
1VY6|1|CA|G|894
*
1VY6|1|CA|U|905
1VY6|1|CA|G|906
1VY6|1|CA|A|907
1VY6|1|CA|A|908
1VY6|1|CA|A|909
1VY6|1|CA|C|910

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CL

30S ribosomal protein S12

Chain CQ

30S ribosomal protein S17