J5_1VY4_010

3D structure

PDB id

1VY4 (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 acylated tRNA-substrates in the A and P sites.

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 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_1VY4_010 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.073

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

1VY4|1|CA|C|36
1VY4|1|CA|U|37
1VY4|1|CA|G|38
1VY4|1|CA|G|39
*
1VY4|1|CA|C|403
1VY4|1|CA|U|404
1VY4|1|CA|U|405
1VY4|1|CA|G|406
*
1VY4|1|CA|C|436
1VY4|1|CA|U|437
1VY4|1|CA|G|438
1VY4|1|CA|A|439
1VY4|1|CA|A|441
1VY4|1|CA|C|442
*
1VY4|1|CA|G|492
1VY4|1|CA|G|493
1VY4|1|CA|U|494
1VY4|1|CA|A|495
1VY4|1|CA|A|496
1VY4|1|CA|U|498
1VY4|1|CA|A|499
1VY4|1|CA|G|500
*
1VY4|1|CA|C|545
1VY4|1|CA|G|546
1VY4|1|CA|A|547
1VY4|1|CA|G|548

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CD

30S ribosomal protein S4

Chain CL

30S ribosomal protein S12