IL_1VY7_104

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

AUGAGUAA*UGAAAUU

Length

15 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_1VY7_104 not in the Motif Atlas

Homologous match to IL_7RQB_049

Geometric discrepancy: 0.0408

The information below is about IL_7RQB_049

Detailed Annotation

8x7 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_04346.7

Basepair signature

cWW-cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

15

Unit IDs

1VY7|1|BA|A|1262
1VY7|1|BA|U|1263
1VY7|1|BA|G|1264
1VY7|1|BA|A|1265
1VY7|1|BA|G|1266
1VY7|1|BA|U|1267
1VY7|1|BA|A|1268
1VY7|1|BA|A|1269
*
1VY7|1|BA|U|2011
1VY7|1|BA|G|2012
1VY7|1|BA|A|2013
1VY7|1|BA|A|2014
1VY7|1|BA|A|2015
1VY7|1|BA|U|2016
1VY7|1|BA|U|2017

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain B5

50S ribosomal protein L32

Chain BF

50S ribosomal protein L4

Chain BW

50S ribosomal protein L22