J3_1VY6_071

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

GGGACG*CC*GAAAAGC

Length

15 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

J3_1VY6_071 not in the Motif Atlas

Homologous match to J3_9DFE_013

Geometric discrepancy: 0.0764

The information below is about J3_9DFE_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_34864.3

Basepair signature

cWW-tSH-tSH-tHH-F-F-cWW-F-cWW

Number of instances in this motif group

4

Unit IDs

1VY6|1|DA|G|1424
1VY6|1|DA|G|1425
1VY6|1|DA|G|1426
1VY6|1|DA|A|1427
1VY6|1|DA|C|1428
1VY6|1|DA|G|1429
*
1VY6|1|DA|C|1564
1VY6|1|DA|C|1565
*
1VY6|1|DA|G|1568
1VY6|1|DA|A|1569
1VY6|1|DA|A|1570
1VY6|1|DA|A|1571
1VY6|1|DA|A|1572
1VY6|1|DA|G|1573
1VY6|1|DA|C|1574

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain DD

50S ribosomal protein L2