J3_1VY7_046

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

CAAG*CGCAAAC*GUG

Length

14 nucleotides

Bulged bases

1VY7|1|DA|A|1609

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

J3_1VY7_046 not in the Motif Atlas

Homologous match to J3_7RQB_008

Geometric discrepancy: 0.0611

The information below is about J3_7RQB_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_16623.1

Basepair signature

cWW-tSH-tWW-tHH-F-tHW-cWW-F-cWW

Number of instances in this motif group

2

Unit IDs

1VY7|1|DA|C|1306
1VY7|1|DA|A|1307
1VY7|1|DA|A|1308
1VY7|1|DA|G|1309
*
1VY7|1|DA|C|1605
1VY7|1|DA|G|1606
1VY7|1|DA|C|1607
1VY7|1|DA|A|1608
1VY7|1|DA|A|1609
1VY7|1|DA|A|1610
1VY7|1|DA|C|1611
*
1VY7|1|DA|G|1620
1VY7|1|DA|U|1621
1VY7|1|DA|G|1622

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D7

50S ribosomal protein L34