HL_1VY7_173

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

GGUCGUC

Length

7 nucleotides

Bulged bases

1VY7|1|DA|G|1325, 1VY7|1|DA|U|1329

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

HL_1VY7_173 not in the Motif Atlas

Homologous match to HL_7A0S_033

Geometric discrepancy: 0.0829

The information below is about HL_7A0S_033

Detailed Annotation

Pseudoknot geometry with 3' bulge

Broad Annotation

No text annotation

Motif group

HL_49081.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

17

Unit IDs

1VY7|1|DA|G|1324
1VY7|1|DA|G|1325
1VY7|1|DA|U|1326
1VY7|1|DA|C|1327
1VY7|1|DA|G|1328
1VY7|1|DA|U|1329
1VY7|1|DA|C|1330

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain DR

50S ribosomal protein L17

Chain DW

50S ribosomal protein L22