IL_1VY5_276

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

GCAAUG*CAGC

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

IL_1VY5_276 not in the Motif Atlas

Geometric match to IL_4V88_408

Geometric discrepancy: 0.3884

The information below is about IL_4V88_408

Detailed Annotation

C-loop with extra cWW pair

Broad Annotation

C-loop

Motif group

IL_11347.2

Basepair signature

cWW-cWW-L-cWW-L

Number of instances in this motif group

3

Unit IDs

1VY5|1|DA|G|1319
1VY5|1|DA|C|1320
1VY5|1|DA|A|1321
1VY5|1|DA|A|1322
1VY5|1|DA|U|1323
1VY5|1|DA|G|1324
*
1VY5|1|DA|C|1330
1VY5|1|DA|A|1331
1VY5|1|DA|G|1332
1VY5|1|DA|C|1333

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain DW

50S ribosomal protein L22

Chain DX

50S ribosomal protein L23