IL_1VQ8_013

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

CCGACCG*CCAGUACG

Length

15 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_013 not in the Motif Atlas

Geometric match to IL_4V9F_012

Geometric discrepancy: 0.0756

The information below is about IL_4V9F_012

Detailed Annotation

8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_59724.1

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-R-L-cWW

Number of instances in this motif group

1

Unit IDs

1VQ8|1|0|C|290
1VQ8|1|0|C|291
1VQ8|1|0|G|292
1VQ8|1|0|A|293
1VQ8|1|0|C|294
1VQ8|1|0|C|295
1VQ8|1|0|G|296
*
1VQ8|1|0|C|355
1VQ8|1|0|C|356
1VQ8|1|0|A|357
1VQ8|1|0|G|358
1VQ8|1|0|U|359
1VQ8|1|0|A|360
1VQ8|1|0|C|361
1VQ8|1|0|G|362

Current chains

Chain 0

23S ribosomal rna

Nearby chains