IL_4V4Y_115

3D structure

PDB id

4V4Y (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the 70S Thermus thermophilus ribosome with translocated and rotated Shine-Dalgarno Duplex.

Experimental method

X-RAY DIFFRACTION

Resolution

5.5 Å

Loop

Sequence

GAAG*CC

Length

6 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_4V4Y_115 not in the Motif Atlas

Homologous match to IL_4WF9_072

Geometric discrepancy: 0.5756

The information below is about IL_4WF9_072

Detailed Annotation

Major groove minor groove platform; mini C-loop

Broad Annotation

No text annotation

Motif group

IL_73108.2

Basepair signature

cWW-cWS-cSH-cWW

Number of instances in this motif group

23

Unit IDs

4V4Y|1|BA|G|1846
4V4Y|1|BA|A|1847
4V4Y|1|BA|A|1848
4V4Y|1|BA|G|1849
*
4V4Y|1|BA|C|1893
4V4Y|1|BA|C|1894

Current chains

Chain BA

23S ribosomal RNA

Nearby chains

Chain AA

Small subunit ribosomal RNA; SSU rRNA

Chain AD

Transfer RNA; tRNA

Chain BD

50S ribosomal protein L2