J3_1VQ8_011

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

UG*CUGCAAAG*CA

Length

12 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

J3_1VQ8_011 not in the Motif Atlas

Geometric match to J3_4V9F_011

Geometric discrepancy: 0.055

The information below is about J3_4V9F_011

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_68715.2

Basepair signature

cWW-cWW-cWW-tWH-tSH-F-F

Number of instances in this motif group

11

Unit IDs

1VQ8|1|0|U|27
1VQ8|1|0|G|28
*
1VQ8|1|0|C|480
1VQ8|1|0|U|481
1VQ8|1|0|G|482
1VQ8|1|0|C|483
1VQ8|1|0|A|484
1VQ8|1|0|A|485
1VQ8|1|0|A|486
1VQ8|1|0|G|487
*
1VQ8|1|0|C|515
1VQ8|1|0|A|516

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain 2

50S ribosomal protein L39e

Chain C

50S ribosomal protein L4E

Chain T

50S ribosomal protein L24P