IL_1VY5_304

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

ACGA*UCUAU

Length

9 nucleotides

Bulged bases

1VY5|1|DA|C|2055, 1VY5|1|DA|C|2612, 1VY5|1|DA|U|2613

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_1VY5_304 not in the Motif Atlas

Homologous match to IL_9DFE_079

Geometric discrepancy: 0.0857

The information below is about IL_9DFE_079

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_70335.1

Basepair signature

cWW-L-R-L-cWW

Number of instances in this motif group

2

Unit IDs

1VY5|1|DA|A|2054
1VY5|1|DA|C|2055
1VY5|1|DA|G|2056
1VY5|1|DA|A|2057
*
1VY5|1|DA|U|2611
1VY5|1|DA|C|2612
1VY5|1|DA|U|2613
1VY5|1|DA|A|2614
1VY5|1|DA|U|2615

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D5

50S ribosomal protein L32

Chain DE

50S ribosomal protein L3

Chain DW

50S ribosomal protein L22