J5_1VY7_001

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

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 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

J5_1VY7_001 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.072

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

1VY7|1|AA|C|36
1VY7|1|AA|U|37
1VY7|1|AA|G|38
1VY7|1|AA|G|39
*
1VY7|1|AA|C|403
1VY7|1|AA|U|404
1VY7|1|AA|U|405
1VY7|1|AA|G|406
*
1VY7|1|AA|C|436
1VY7|1|AA|U|437
1VY7|1|AA|G|438
1VY7|1|AA|A|439
1VY7|1|AA|A|441
1VY7|1|AA|C|442
*
1VY7|1|AA|G|492
1VY7|1|AA|G|493
1VY7|1|AA|U|494
1VY7|1|AA|A|495
1VY7|1|AA|A|496
1VY7|1|AA|U|498
1VY7|1|AA|A|499
1VY7|1|AA|G|500
*
1VY7|1|AA|C|545
1VY7|1|AA|G|546
1VY7|1|AA|A|547
1VY7|1|AA|G|548

Current chains

Chain AA

16S Ribosomal RNA

Nearby chains

Chain AD

30S ribosomal protein S4

Chain AL

30S ribosomal protein S12