J4_1VY4_011

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

UC*GGUUAG*CU*ACCCGUA

Length

17 nucleotides

Bulged bases

1VY4|1|BA|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_1VY4_011 not in the Motif Atlas

Homologous match to J4_9DFE_005

Geometric discrepancy: 0.0549

The information below is about J4_9DFE_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_10313.5

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

1VY4|1|BA|U|1313
1VY4|1|BA|C|1314
*
1VY4|1|BA|G|1338
1VY4|1|BA|G|1339
1VY4|1|BA|U|1340
1VY4|1|BA|U|1341
1VY4|1|BA|A|1342
1VY4|1|BA|G|1343
*
1VY4|1|BA|C|1404
1VY4|1|BA|U|1405
*
1VY4|1|BA|A|1597
1VY4|1|BA|C|1598
1VY4|1|BA|C|1599
1VY4|1|BA|C|1600
1VY4|1|BA|G|1601
1VY4|1|BA|U|1602
1VY4|1|BA|A|1603

Current chains

Chain BA

23S Ribosomal RNA

Nearby chains

Chain B7

50S ribosomal protein L34

Chain BX

50S ribosomal protein L23