HL_1VY5_139

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

CUGCAACCCG

Length

10 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

HL_1VY5_139 not in the Motif Atlas

Homologous match to HL_4LFB_029

Geometric discrepancy: 0.1398

The information below is about HL_4LFB_029

Detailed Annotation

T-loop with 3 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_02887.3

Basepair signature

cWW-tWH-F-F-F-F-F-F

Number of instances in this motif group

2

Unit IDs

1VY5|1|CA|C|1314
1VY5|1|CA|U|1315
1VY5|1|CA|G|1316
1VY5|1|CA|C|1317
1VY5|1|CA|A|1318
1VY5|1|CA|A|1319
1VY5|1|CA|C|1320
1VY5|1|CA|C|1321
1VY5|1|CA|C|1322
1VY5|1|CA|G|1323

Current chains

Chain CA

16S Ribosomal RNA

Nearby chains

Chain CM

30S ribosomal protein S13

Chain CN

30S ribosomal protein S14 type Z

Chain CS

30S ribosomal protein S19