J4_1VY5_026

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

GGUUC*GGUUAG*CU*ACCCGUAC

Length

21 nucleotides

Bulged bases

1VY5|1|DA|U|1341

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

J4_1VY5_026 not in the Motif Atlas

Homologous match to J4_9DFE_004

Geometric discrepancy: 0.0651

The information below is about J4_9DFE_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_69051.6

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

1VY5|1|DA|G|1310
1VY5|1|DA|G|1311
1VY5|1|DA|U|1312
1VY5|1|DA|U|1313
1VY5|1|DA|C|1314
*
1VY5|1|DA|G|1338
1VY5|1|DA|G|1339
1VY5|1|DA|U|1340
1VY5|1|DA|U|1341
1VY5|1|DA|A|1342
1VY5|1|DA|G|1343
*
1VY5|1|DA|C|1404
1VY5|1|DA|U|1405
*
1VY5|1|DA|A|1597
1VY5|1|DA|C|1598
1VY5|1|DA|C|1599
1VY5|1|DA|C|1600
1VY5|1|DA|G|1601
1VY5|1|DA|U|1602
1VY5|1|DA|A|1603
1VY5|1|DA|C|1604

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D7

50S ribosomal protein L34

Chain DX

50S ribosomal protein L23