J3_1VY4_038

3D structure

PDB id

1VY4 (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 acylated tRNA-substrates in the A and P sites.

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

CAAUG*CCCAGUUC*GCCG

Length

17 nucleotides

Bulged bases

1VY4|1|CA|U|1240

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

J3_1VY4_038 not in the Motif Atlas

Homologous match to J3_4LFB_009

Geometric discrepancy: 0.0879

The information below is about J3_4LFB_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_37047.6

Basepair signature

cWW-cSS-tHW-F-F-F-cWW-cWW-F-cSH-F-F

Number of instances in this motif group

4

Unit IDs

1VY4|1|CA|C|1237
1VY4|1|CA|A|1238
1VY4|1|CA|A|1239
1VY4|1|CA|U|1240
1VY4|1|CA|G|1241
*
1VY4|1|CA|C|1296
1VY4|1|CA|C|1297
1VY4|1|CA|C|1298
1VY4|1|CA|A|1299
1VY4|1|CA|G|1300
1VY4|1|CA|U|1301
1VY4|1|CA|U|1302
1VY4|1|CA|C|1303
*
1VY4|1|CA|G|1334
1VY4|1|CA|C|1335
1VY4|1|CA|C|1336
1VY4|1|CA|G|1337

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CG

30S ribosomal protein S7

Chain CM

30S ribosomal protein S13

Chain CU

30S ribosomal protein Thx