IL_1VY7_320

3D structure

PDB id

1VY7 (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-Cytidine-Puromycin in the A site and acylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CUC*GCGAG

Length

8 nucleotides

Bulged bases

1VY7|1|DA|G|2576, 1VY7|1|DA|A|2577

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_1VY7_320 not in the Motif Atlas

Geometric match to IL_5J7L_340

Geometric discrepancy: 0.0888

The information below is about IL_5J7L_340

Detailed Annotation

Isolated non-canonical cWW with bulges

Broad Annotation

Isolated non-canonical cWW with bulges

Motif group

IL_07785.1

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

33

Unit IDs

1VY7|1|DA|C|2510
1VY7|1|DA|U|2511
1VY7|1|DA|C|2512
*
1VY7|1|DA|G|2574
1VY7|1|DA|C|2575
1VY7|1|DA|G|2576
1VY7|1|DA|A|2577
1VY7|1|DA|G|2578

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D5

50S ribosomal protein L32

Chain DE

50S ribosomal protein L3