IL_1VY6_102

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

CGAUGAAG*UGGAG

Length

13 nucleotides

Bulged bases

1VY6|1|BA|U|1211

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_102 not in the Motif Atlas

Homologous match to IL_7RQB_047

Geometric discrepancy: 0.0515

The information below is about IL_7RQB_047

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_70923.2

Basepair signature

cWW-tSS-tSH-L-tHS-tHS-cWW

Number of instances in this motif group

28

Unit IDs

1VY6|1|BA|C|1208
1VY6|1|BA|G|1209
1VY6|1|BA|A|1210
1VY6|1|BA|U|1211
1VY6|1|BA|G|1212
1VY6|1|BA|A|1213
1VY6|1|BA|A|1214
1VY6|1|BA|G|1215
*
1VY6|1|BA|U|1234
1VY6|1|BA|G|1235
1VY6|1|BA|G|1236
1VY6|1|BA|A|1237
1VY6|1|BA|G|1238

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain BU

50S ribosomal protein L20