IL_1VY4_334

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

CG*CAG

Length

5 nucleotides

Bulged bases

1VY4|1|DB|A|66

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

IL_1VY4_334 not in the Motif Atlas

Homologous match to IL_4WF9_112

Geometric discrepancy: 0.1761

The information below is about IL_4WF9_112

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_14190.1

Basepair signature

cWW-L-cWW

Number of instances in this motif group

134

Unit IDs

1VY4|1|DB|C|17
1VY4|1|DB|G|18
*
1VY4|1|DB|C|65
1VY4|1|DB|A|66
1VY4|1|DB|G|67

Current chains

Chain DB

5S Ribosomal RNA

Nearby chains

Chain DA

Large subunit ribosomal RNA; LSU rRNA

Chain DS

50S ribosomal protein L18

Chain DZ

50S ribosomal protein L25