IL_6OTR_308

3D structure

PDB id

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

Description

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

Experimental method

X-RAY DIFFRACTION

Resolution

3.12 Å

Loop

Sequence

CCGG*CG

Length

6 nucleotides

Bulged bases

6OTR|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_6OTR_308 not in the Motif Atlas

Homologous match to IL_5J7L_314

Geometric discrepancy: 0.1407

The information below is about IL_5J7L_314

Detailed Annotation

Minor groove platform, major groove intercalation

Broad Annotation

Minor groove platform, major groove intercalation

Motif group

IL_95583.2

Basepair signature

cWW-L-cWW

Number of instances in this motif group

11

Unit IDs

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