IL_1VY7_018

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

GGACG*CGGUAC

Length

11 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_018 not in the Motif Atlas

Geometric match to IL_6CZR_130

Geometric discrepancy: 0.1286

The information below is about IL_6CZR_130

Detailed Annotation

6x5 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_88269.3

Basepair signature

cWW-L-R-cSH-tWH-tHS-cWW

Number of instances in this motif group

4

Unit IDs

1VY7|1|AA|G|446
1VY7|1|AA|G|447
1VY7|1|AA|A|448
1VY7|1|AA|C|449
1VY7|1|AA|G|450
*
1VY7|1|AA|C|483
1VY7|1|AA|G|484
1VY7|1|AA|G|485
1VY7|1|AA|U|486
1VY7|1|AA|A|487
1VY7|1|AA|C|488

Current chains

Chain AA

16S Ribosomal RNA

Nearby chains

Chain AD

30S ribosomal protein S4

Chain AP

30S ribosomal protein S16