J3_1VY5_059

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

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

1VY5|1|BA|U|448, 1VY5|1|BA|C|456

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_059 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.0569

The information below is about J3_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_30040.2

Basepair signature

cWW-tWH-F-cWW-tSS-tHH-cSS-tWH-tSW-tHS-cWW-tWH-F-cSH-tSS-F-F

Number of instances in this motif group

7

Unit IDs

1VY5|1|BA|C|32
1VY5|1|BA|U|33
1VY5|1|BA|C|34
1VY5|1|BA|G|35
*
1VY5|1|BA|C|445
1VY5|1|BA|G|446
1VY5|1|BA|A|447
1VY5|1|BA|U|448
1VY5|1|BA|A|449
1VY5|1|BA|G|450
1VY5|1|BA|C|451
1VY5|1|BA|G|452
1VY5|1|BA|C|453
1VY5|1|BA|A|454
1VY5|1|BA|C|455
1VY5|1|BA|C|456
1VY5|1|BA|A|457
1VY5|1|BA|G|458
1VY5|1|BA|U|459
1VY5|1|BA|A|460
1VY5|1|BA|C|461
*
1VY5|1|BA|G|468
1VY5|1|BA|G|469
1VY5|1|BA|A|470
1VY5|1|BA|A|471
1VY5|1|BA|A|472
1VY5|1|BA|G|473

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain B7

50S ribosomal protein L34

Chain BF

50S ribosomal protein L4

Chain BU

50S ribosomal protein L20

Chain BX

50S ribosomal protein L23