J4_1VY4_007

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

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

1VY4|1|BA|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_1VY4_007 not in the Motif Atlas

Homologous match to J4_9DFE_001

Geometric discrepancy: 0.0572

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

1VY4|1|BA|C|268
1VY4|1|BA|U|269
*
1VY4|1|BA|G|370
1VY4|1|BA|A|371
1VY4|1|BA|G|372
1VY4|1|BA|U|373
1VY4|1|BA|A|374
1VY4|1|BA|C|375
*
1VY4|1|BA|G|399
1VY4|1|BA|G|400
1VY4|1|BA|A|401
1VY4|1|BA|A|402
1VY4|1|BA|U|403
1VY4|1|BA|C|404
1VY4|1|BA|U|405
1VY4|1|BA|G|406
*
1VY4|1|BA|U|421
1VY4|1|BA|A|422
1VY4|1|BA|A|423
1VY4|1|BA|G|424

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain B1

50S ribosomal protein L28

Chain BI

50S ribosomal protein L9