IL_1VY7_034

3D structure

PDB id

1VY7 (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-Cytidine-Puromycin in the A site and acylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 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_1VY7_034 not in the Motif Atlas

Homologous match to IL_4LFB_034

Geometric discrepancy: 0.0871

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

1VY7|1|AA|G|887
1VY7|1|AA|G|888
1VY7|1|AA|A|889
1VY7|1|AA|G|890
1VY7|1|AA|U|891
1VY7|1|AA|A|892
1VY7|1|AA|C|893
1VY7|1|AA|G|894
*
1VY7|1|AA|U|905
1VY7|1|AA|G|906
1VY7|1|AA|A|907
1VY7|1|AA|A|908
1VY7|1|AA|A|909
1VY7|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