IL_1VQ8_066

3D structure

PDB id

1VQ8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

The structure of CCDA-PHE-CAP-BIO and the antibiotic sparsomycin bound to the large ribosomal subunit of haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.2 Å

Loop

Sequence

CGCAAAU*ACUCGUACG

Length

16 nucleotides

Bulged bases

1VQ8|1|0|A|1857, 1VQ8|1|0|C|1872, 1VQ8|1|0|C|1876

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

IL_1VQ8_066 not in the Motif Atlas

Homologous match to IL_4V9F_065

Geometric discrepancy: 0.0477

The information below is about IL_4V9F_065

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_17069.6

Basepair signature

cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

Number of instances in this motif group

5

Unit IDs

1VQ8|1|0|C|1854
1VQ8|1|0|G|1855
1VQ8|1|0|C|1856
1VQ8|1|0|A|1857
1VQ8|1|0|A|1858
1VQ8|1|0|A|1859
1VQ8|1|0|U|1860
*
1VQ8|1|0|A|1869
1VQ8|1|0|C|1870
1VQ8|1|0|U|1871
1VQ8|1|0|C|1872
1VQ8|1|0|G|1873
1VQ8|1|0|U|1874
1VQ8|1|0|A|1875
1VQ8|1|0|C|1876
1VQ8|1|0|G|1877

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain A

50S ribosomal protein L2P

Chain Z

50S ribosomal protein L37Ae