IL_1VQ8_105

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

GGAGUAC*GGAAAC

Length

13 nucleotides

Bulged bases

None detected

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_105 not in the Motif Atlas

Homologous match to IL_4V9F_106

Geometric discrepancy: 0.0371

The information below is about IL_4V9F_106

Detailed Annotation

7x6 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_02666.1

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

17

Unit IDs

1VQ8|1|9|G|3075
1VQ8|1|9|G|3076
1VQ8|1|9|A|3077
1VQ8|1|9|G|3078
1VQ8|1|9|U|3079
1VQ8|1|9|A|3080
1VQ8|1|9|C|3081
*
1VQ8|1|9|G|3101
1VQ8|1|9|G|3102
1VQ8|1|9|A|3103
1VQ8|1|9|A|3104
1VQ8|1|9|A|3105
1VQ8|1|9|C|3106

Current chains

Chain 9

5S ribosomal RNA

Nearby chains

Chain 0

Large subunit ribosomal RNA; LSU rRNA

Chain H

50S RIBOSOMAL PROTEIN L10E

Chain W

50S ribosomal protein L30P