IL_1QVG_082

3D structure

PDB id

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

Description

Structure of CCA oligonucleotide bound to the tRNA binding sites of the large ribosomal subunit of Haloarcula marismortui

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

GUC*GGCUU

Length

8 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_1QVG_082 not in the Motif Atlas

Homologous match to IL_4V9F_084

Geometric discrepancy: 0.1166

The information below is about IL_4V9F_084

Detailed Annotation

Major groove minor groove platform with extra cWW

Broad Annotation

Major groove minor groove platform with extra cWW

Motif group

IL_51387.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

21

Unit IDs

1QVG|1|0|G|2494
1QVG|1|0|U|2495
1QVG|1|0|C|2496
*
1QVG|1|0|G|2524
1QVG|1|0|G|2525
1QVG|1|0|C|2526
1QVG|1|0|U|2527
1QVG|1|0|U|2528

Current chains

Chain 0

23S ribosomal rna

Nearby chains

Chain 5

Oligonucleotide CCA

Chain 9

5S ribosomal RNA; 5S rRNA

Chain H

L10 Ribosomal Protein