J3_1VY6_050

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

CAUC*GUU*AUUAAAG

Length

14 nucleotides

Bulged bases

1VY6|1|DA|A|2518, 1VY6|1|DA|U|2519

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_050 not in the Motif Atlas

Homologous match to J3_9DFE_017

Geometric discrepancy: 0.0793

The information below is about J3_9DFE_017

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_32601.6

Basepair signature

cWW-cWH-cWW-tWH-tSS-F-cWW-F

Number of instances in this motif group

4

Unit IDs

1VY6|1|DA|C|2517
1VY6|1|DA|A|2518
1VY6|1|DA|U|2519
1VY6|1|DA|C|2520
*
1VY6|1|DA|G|2545
1VY6|1|DA|U|2546
1VY6|1|DA|U|2547
*
1VY6|1|DA|A|2561
1VY6|1|DA|U|2562
1VY6|1|DA|U|2563
1VY6|1|DA|A|2564
1VY6|1|DA|A|2565
1VY6|1|DA|A|2566
1VY6|1|DA|G|2567

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain DN

50S ribosomal protein L13

Chain DO

50S ribosomal protein L14