J4_1VY5_023

3D structure

PDB id

1VY5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.55 Å

Loop

Sequence

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

1VY5|1|DA|U|405

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

J4_1VY5_023 not in the Motif Atlas

Homologous match to J4_9DFE_001

Geometric discrepancy: 0.063

The information below is about J4_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_45801.6

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-F-cWW

Number of instances in this motif group

7

Unit IDs

1VY5|1|DA|C|268
1VY5|1|DA|U|269
*
1VY5|1|DA|G|370
1VY5|1|DA|A|371
1VY5|1|DA|G|372
1VY5|1|DA|U|373
1VY5|1|DA|A|374
1VY5|1|DA|C|375
*
1VY5|1|DA|G|399
1VY5|1|DA|G|400
1VY5|1|DA|A|401
1VY5|1|DA|A|402
1VY5|1|DA|U|403
1VY5|1|DA|C|404
1VY5|1|DA|U|405
1VY5|1|DA|G|406
*
1VY5|1|DA|U|421
1VY5|1|DA|A|422
1VY5|1|DA|A|423
1VY5|1|DA|G|424

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D1

50S ribosomal protein L28

Chain DI

50S ribosomal protein L9