IL_1VY7_190

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

GUGCCAG*CGGUAAUAC

Length

16 nucleotides

Bulged bases

1VY7|1|CA|A|532, 1VY7|1|CA|U|534, 1VY7|1|CA|A|535

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_190 not in the Motif Atlas

Geometric match to IL_4V88_415

Geometric discrepancy: 0.1562

The information below is about IL_4V88_415

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_54177.1

Basepair signature

cWW-cSW-tWH-L-R-L-R-tHS-cWW

Number of instances in this motif group

5

Unit IDs

1VY7|1|CA|G|515
1VY7|1|CA|U|516
1VY7|1|CA|G|517
1VY7|1|CA|C|518
1VY7|1|CA|C|519
1VY7|1|CA|A|520
1VY7|1|CA|G|521
*
1VY7|1|CA|C|528
1VY7|1|CA|G|529
1VY7|1|CA|G|530
1VY7|1|CA|U|531
1VY7|1|CA|A|532
1VY7|1|CA|A|533
1VY7|1|CA|U|534
1VY7|1|CA|A|535
1VY7|1|CA|C|536

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CC

30S ribosomal protein S3

Chain CD

30S ribosomal protein S4

Chain CL

30S ribosomal protein S12