IL_4V4J_080

3D structure

PDB id

4V4J (explore in PDB, NAKB, or RNA 3D Hub)

Description

Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome.

Experimental method

X-RAY DIFFRACTION

Resolution

3.83 Å

Loop

Sequence

CAG*CGGG

Length

7 nucleotides

Bulged bases

4V4J|1|w|G|2238

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_4V4J_080 not in the Motif Atlas

Homologous match to IL_7RQB_082

Geometric discrepancy: 0.254

The information below is about IL_7RQB_082

Detailed Annotation

Isolated tHS basepair with bulges

Broad Annotation

No text annotation

Motif group

IL_38958.7

Basepair signature

cWW-tHS-cWW

Number of instances in this motif group

15

Unit IDs

4V4J|1|w|C|2081
4V4J|1|w|A|2082
4V4J|1|w|G|2083
*
4V4J|1|w|C|2236
4V4J|1|w|G|2237
4V4J|1|w|G|2238
4V4J|1|w|G|2239

Current chains

Chain w

23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain 2

Transfer RNA; tRNA

Chain B

50S ribosomal protein L2

Chain V

LSU ribosomal protein L28P