J3_4V4J_008

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

CAAG*CGCAAAC*GUG

Length

14 nucleotides

Bulged bases

4V4J|1|w|C|1607, 4V4J|1|w|A|1609

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

J3_4V4J_008 not in the Motif Atlas

Homologous match to J3_5J7L_042

Geometric discrepancy: 0.2482

The information below is about J3_5J7L_042

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_19545.2

Basepair signature

cWW-F-F-tHS-cWW-cWW-F-F

Number of instances in this motif group

6

Unit IDs

4V4J|1|w|C|1306
4V4J|1|w|A|1307
4V4J|1|w|A|1308
4V4J|1|w|G|1309
*
4V4J|1|w|C|1605
4V4J|1|w|G|1606
4V4J|1|w|C|1607
4V4J|1|w|A|1608
4V4J|1|w|A|1609
4V4J|1|w|A|1610
4V4J|1|w|C|1611
*
4V4J|1|w|G|1620
4V4J|1|w|U|1621
4V4J|1|w|G|1622

Current chains

Chain w

23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain Z

50S ribosomal protein L34