IL_1VY6_260

3D structure

PDB id

1VY6 (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 short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

GGG*CUAC

Length

7 nucleotides

Bulged bases

1VY6|1|DA|A|896

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_1VY6_260 not in the Motif Atlas

Geometric match to IL_3TD0_002

Geometric discrepancy: 0.3406

The information below is about IL_3TD0_002

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

Isolated non-canonical cWW pair

Motif group

IL_57744.1

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

22

Unit IDs

1VY6|1|DA|G|880
1VY6|1|DA|G|881
1VY6|1|DA|G|882
*
1VY6|1|DA|C|894
1VY6|1|DA|U|895
1VY6|1|DA|A|896
1VY6|1|DA|C|897

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain DZ

50S ribosomal protein L25