J3_1VY7_023

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*GAG*UAGAAG

Length

12 nucleotides

Bulged bases

1VY7|1|BA|G|2334

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

J3_1VY7_023 not in the Motif Atlas

Homologous match to J3_7RQB_011

Geometric discrepancy: 0.0636

The information below is about J3_7RQB_011

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_91491.4

Basepair signature

cWW-F-tWW-tHW-cWW-F-cWW

Number of instances in this motif group

7

Unit IDs

1VY7|1|BA|C|2295
1VY7|1|BA|U|2296
1VY7|1|BA|C|2297
*
1VY7|1|BA|G|2321
1VY7|1|BA|A|2322
1VY7|1|BA|G|2323
*
1VY7|1|BA|U|2332
1VY7|1|BA|A|2333
1VY7|1|BA|G|2334
1VY7|1|BA|A|2335
1VY7|1|BA|A|2336
1VY7|1|BA|G|2337

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain AX

Transfer RNA; tRNA

Chain B0

50S ribosomal protein L27

Chain BB

5S ribosomal RNA; 5S rRNA

Chain BG

50S ribosomal protein L5

Chain BS

50S ribosomal protein L18