J4_1VY4_014

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

UUG*CG*CCUAAGGUAG*CGAAAA

Length

21 nucleotides

Bulged bases

1VY4|1|BA|A|1971

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_014 not in the Motif Atlas

Homologous match to J4_9DFE_008

Geometric discrepancy: 0.0568

The information below is about J4_9DFE_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_93343.1

Basepair signature

cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

Number of instances in this motif group

4

Unit IDs

1VY4|1|BA|U|1833
1VY4|1|BA|U|1834
1VY4|1|BA|G|1835
*
1VY4|1|BA|C|1905
1VY4|1|BA|G|1906
*
1VY4|1|BA|C|1924
1VY4|1|BA|C|1925
1VY4|1|BA|U|1926
1VY4|1|BA|A|1927
1VY4|1|BA|A|1928
1VY4|1|BA|G|1929
1VY4|1|BA|G|1930
1VY4|1|BA|U|1931
1VY4|1|BA|A|1932
1VY4|1|BA|G|1933
*
1VY4|1|BA|C|1967
1VY4|1|BA|G|1968
1VY4|1|BA|A|1969
1VY4|1|BA|A|1970
1VY4|1|BA|A|1971
1VY4|1|BA|A|1972

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain AA

Small subunit ribosomal RNA; SSU rRNA

Chain AX

Transfer RNA; tRNA

Chain BD

50S ribosomal protein L2