J5_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

GCAAGUUGG*UG*CC*GUGAACAGG*CGC

Length

25 nucleotides

Bulged bases

1VY5|1|BA|G|1758, 1VY5|1|BA|G|1763

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

J5_1VY5_007 not in the Motif Atlas

Homologous match to J5_9DFE_005

Geometric discrepancy: 0.0552

The information below is about J5_9DFE_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_62523.6

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

1VY5|1|BA|G|1674
1VY5|1|BA|C|1675
1VY5|1|BA|A|1676
1VY5|1|BA|A|1677
1VY5|1|BA|G|1678
1VY5|1|BA|U|1679
1VY5|1|BA|U|1680
1VY5|1|BA|G|1681
1VY5|1|BA|G|1682
*
1VY5|1|BA|U|1706
1VY5|1|BA|G|1707
*
1VY5|1|BA|C|1751
1VY5|1|BA|C|1752
*
1VY5|1|BA|G|1756
1VY5|1|BA|U|1757
1VY5|1|BA|G|1758
1VY5|1|BA|A|1759
1VY5|1|BA|A|1760
1VY5|1|BA|C|1761
1VY5|1|BA|A|1762
1VY5|1|BA|G|1763
1VY5|1|BA|G|1764
*
1VY5|1|BA|C|1988
1VY5|1|BA|G|1989
1VY5|1|BA|C|1990

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain AA

Small subunit ribosomal RNA; SSU rRNA

Chain BE

50S ribosomal protein L3

Chain BO

50S ribosomal protein L14

Chain BT

50S ribosomal protein L19