J3_1VY5_007

3D structure

PDB id

1VY5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site.

Experimental method

X-RAY DIFFRACTION

Resolution

2.55 Å

Loop

Sequence

UUUAAUUC*GAAGAACCUUAC*GGCGA

Length

25 nucleotides

Bulged bases

1VY5|1|AA|A|975, 1VY5|1|AA|G|976, 1VY5|1|AA|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_1VY5_007 not in the Motif Atlas

Homologous match to J3_4LFB_004

Geometric discrepancy: 0.05

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

1VY5|1|AA|U|955
1VY5|1|AA|U|956
1VY5|1|AA|U|957
1VY5|1|AA|A|958
1VY5|1|AA|A|959
1VY5|1|AA|U|960
1VY5|1|AA|U|961
1VY5|1|AA|C|962
*
1VY5|1|AA|G|973
1VY5|1|AA|A|974
1VY5|1|AA|A|975
1VY5|1|AA|G|976
1VY5|1|AA|A|977
1VY5|1|AA|A|978
1VY5|1|AA|C|979
1VY5|1|AA|C|980
1VY5|1|AA|U|981
1VY5|1|AA|U|982
1VY5|1|AA|A|983
1VY5|1|AA|C|984
*
1VY5|1|AA|G|1221
1VY5|1|AA|G|1222
1VY5|1|AA|C|1223
1VY5|1|AA|G|1224
1VY5|1|AA|A|1225

Current chains

Chain AA

16S Ribosomal RNA

Nearby chains

Chain AJ

30S ribosomal protein S10

Chain AM

30S ribosomal protein S13

Chain AN

30S ribosomal protein S14 type Z

Chain AS

30S ribosomal protein S19

Chain AW

Transfer RNA; tRNA