IL_1VY6_148

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

CUGA*UGG

Length

7 nucleotides

Bulged bases

None detected

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_148 not in the Motif Atlas

Homologous match to IL_7RQB_093

Geometric discrepancy: 0.0622

The information below is about IL_7RQB_093

Detailed Annotation

Major groove platform with extra pair

Broad Annotation

Major groove platform

Motif group

IL_63450.2

Basepair signature

cWW-cWW-cSH-cWW

Number of instances in this motif group

8

Unit IDs

1VY6|1|BA|C|2456
1VY6|1|BA|U|2457
1VY6|1|BA|G|2458
1VY6|1|BA|A|2459
*
1VY6|1|BA|U|2493
1VY6|1|BA|G|2494
1VY6|1|BA|G|2495

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain AW

Cytidine-Puromycin

Chain B0

50S ribosomal protein L27

Chain BQ

50S ribosomal protein L16