J3_1VY4_067

3D structure

PDB id

1VY4 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites.

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

1VY4|1|DA|C|34, 1VY4|1|DA|U|448, 1VY4|1|DA|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_1VY4_067 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.0864

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

1VY4|1|DA|C|32
1VY4|1|DA|U|33
1VY4|1|DA|C|34
1VY4|1|DA|G|35
*
1VY4|1|DA|C|445
1VY4|1|DA|G|446
1VY4|1|DA|A|447
1VY4|1|DA|U|448
1VY4|1|DA|A|449
1VY4|1|DA|G|450
1VY4|1|DA|C|451
1VY4|1|DA|G|452
1VY4|1|DA|C|453
1VY4|1|DA|A|454
1VY4|1|DA|C|455
1VY4|1|DA|C|456
1VY4|1|DA|A|457
1VY4|1|DA|G|458
1VY4|1|DA|U|459
1VY4|1|DA|A|460
1VY4|1|DA|C|461
*
1VY4|1|DA|G|468
1VY4|1|DA|G|469
1VY4|1|DA|A|470
1VY4|1|DA|A|471
1VY4|1|DA|A|472
1VY4|1|DA|G|473

Current chains

Chain DA

23S Ribosomal RNA

Nearby chains

Chain D7

50S ribosomal protein L34

Chain DF

50S ribosomal protein L4

Chain DU

50S ribosomal protein L20

Chain DX

50S ribosomal protein L23