IL_1VY6_219

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

CCACC*GGGAG

Length

10 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_219 not in the Motif Atlas

Geometric match to IL_5J7L_056

Geometric discrepancy: 0.2584

The information below is about IL_5J7L_056

Detailed Annotation

Double sheared with non-canonical cWW

Broad Annotation

Double sheared

Motif group

IL_17948.2

Basepair signature

cWW-L-R-tSH-tHS-cWW

Number of instances in this motif group

13

Unit IDs

1VY6|1|CA|C|1259
1VY6|1|CA|C|1260
1VY6|1|CA|A|1261
1VY6|1|CA|C|1262
1VY6|1|CA|C|1263
*
1VY6|1|CA|G|1272
1VY6|1|CA|G|1273
1VY6|1|CA|G|1274
1VY6|1|CA|A|1275
1VY6|1|CA|G|1276

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CS

30S ribosomal protein S19

Chain CU

30S ribosomal protein Thx