J3_1VY4_033

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

UUUAAUUC*GAAGAACCUUAC*GGCGA

Length

25 nucleotides

Bulged bases

1VY4|1|CA|A|975, 1VY4|1|CA|G|976, 1VY4|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_1VY4_033 not in the Motif Atlas

Homologous match to J3_4LFB_004

Geometric discrepancy: 0.1071

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

1VY4|1|CA|U|955
1VY4|1|CA|U|956
1VY4|1|CA|U|957
1VY4|1|CA|A|958
1VY4|1|CA|A|959
1VY4|1|CA|U|960
1VY4|1|CA|U|961
1VY4|1|CA|C|962
*
1VY4|1|CA|G|973
1VY4|1|CA|A|974
1VY4|1|CA|A|975
1VY4|1|CA|G|976
1VY4|1|CA|A|977
1VY4|1|CA|A|978
1VY4|1|CA|C|979
1VY4|1|CA|C|980
1VY4|1|CA|U|981
1VY4|1|CA|U|982
1VY4|1|CA|A|983
1VY4|1|CA|C|984
*
1VY4|1|CA|G|1221
1VY4|1|CA|G|1222
1VY4|1|CA|C|1223
1VY4|1|CA|G|1224
1VY4|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

Chain CW

Transfer RNA; tRNA