IL_4V4J_070

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

UG*UGAA

Length

6 nucleotides

Bulged bases

4V4J|1|w|G|1899, 4V4J|1|w|A|1900

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_070 not in the Motif Atlas

Homologous match to IL_5J7L_315

Geometric discrepancy: 0.2509

The information below is about IL_5J7L_315

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_82107.5

Basepair signature

cWW-cWW

Number of instances in this motif group

31

Unit IDs

4V4J|1|w|U|1841
4V4J|1|w|G|1842
*
4V4J|1|w|U|1898
4V4J|1|w|G|1899
4V4J|1|w|A|1900
4V4J|1|w|A|1901

Current chains

Chain w

23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain B

50S ribosomal protein L2

Chain y

Small subunit ribosomal RNA; SSU rRNA