J3_1VY7_033

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

UUUAAUUC*GAAGAACCUUAC*GGCGA

Length

25 nucleotides

Bulged bases

1VY7|1|CA|A|975, 1VY7|1|CA|G|976, 1VY7|1|CA|A|978

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_1VY7_033 not in the Motif Atlas

Homologous match to J3_4LFB_004

Geometric discrepancy: 0.106

The information below is about J3_4LFB_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_83516.4

Basepair signature

cWW-tWW-F-F-F-F-F-tSS-cWW-F-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

4

Unit IDs

1VY7|1|CA|U|955
1VY7|1|CA|U|956
1VY7|1|CA|U|957
1VY7|1|CA|A|958
1VY7|1|CA|A|959
1VY7|1|CA|U|960
1VY7|1|CA|U|961
1VY7|1|CA|C|962
*
1VY7|1|CA|G|973
1VY7|1|CA|A|974
1VY7|1|CA|A|975
1VY7|1|CA|G|976
1VY7|1|CA|A|977
1VY7|1|CA|A|978
1VY7|1|CA|C|979
1VY7|1|CA|C|980
1VY7|1|CA|U|981
1VY7|1|CA|U|982
1VY7|1|CA|A|983
1VY7|1|CA|C|984
*
1VY7|1|CA|G|1221
1VY7|1|CA|G|1222
1VY7|1|CA|C|1223
1VY7|1|CA|G|1224
1VY7|1|CA|A|1225

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CJ

30S ribosomal protein S10

Chain CM

30S ribosomal protein S13

Chain CN

30S ribosomal protein S14 type Z

Chain CS

30S ribosomal protein S19