HL_1VY6_185

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

UUUACCAAAAA

Length

11 nucleotides

Bulged bases

1VY6|1|DA|A|1780, 1VY6|1|DA|C|1781, 1VY6|1|DA|C|1782, 1VY6|1|DA|A|1786

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_1VY6_185 not in the Motif Atlas

Homologous match to HL_7RQB_045

Geometric discrepancy: 0.0623

The information below is about HL_7RQB_045

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_43613.5

Basepair signature

cWW-tWH-tWH-F

Number of instances in this motif group

6

Unit IDs

1VY6|1|DA|U|1777
1VY6|1|DA|U|1778
1VY6|1|DA|U|1779
1VY6|1|DA|A|1780
1VY6|1|DA|C|1781
1VY6|1|DA|C|1782
1VY6|1|DA|A|1783
1VY6|1|DA|A|1784
1VY6|1|DA|A|1785
1VY6|1|DA|A|1786
1VY6|1|DA|A|1787

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D7

50S ribosomal protein L34

Chain DD

50S ribosomal protein L2

Chain DW

50S ribosomal protein L22