IL_6OXA_305

3D structure

PDB id

6OXA (explore in PDB, NAKB, or RNA 3D Hub)

Description

Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU)

Experimental method

X-RAY DIFFRACTION

Resolution

3.25 Å

Loop

Sequence

CCGG*CG

Length

6 nucleotides

Bulged bases

6OXA|1|YA|C|1838

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_6OXA_305 not in the Motif Atlas

Homologous match to IL_7A0S_066

Geometric discrepancy: 0.147

The information below is about IL_7A0S_066

Detailed Annotation

Minor groove platform, major groove intercalation

Broad Annotation

Minor groove platform, major groove intercalation

Motif group

IL_73108.1

Basepair signature

cWW-L-cWW-L

Number of instances in this motif group

29

Unit IDs

6OXA|1|YA|C|1837
6OXA|1|YA|C|1838
6OXA|1|YA|G|1839
6OXA|1|YA|G|1840
*
6OXA|1|YA|C|1902
6OXA|1|YA|G|1903

Current chains

Chain YA

23S rRNA

Nearby chains

Chain XA

Small subunit ribosomal RNA; SSU rRNA

Chain YD

50S ribosomal protein L2