J4_4V4J_009

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

GACUG*CACAG*CGAC*GUAAC

Length

19 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

J4_4V4J_009 not in the Motif Atlas

Homologous match to J4_5J7L_025

Geometric discrepancy: 0.2069

The information below is about J4_5J7L_025

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61477.5

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

4V4J|1|w|G|1772
4V4J|1|w|A|1773
4V4J|1|w|C|1774
4V4J|1|w|U|1775
4V4J|1|w|G|1776
*
4V4J|1|w|C|1788
4V4J|1|w|A|1789
4V4J|1|w|C|1790
4V4J|1|w|A|1791
4V4J|1|w|G|1792
*
4V4J|1|w|C|1827
4V4J|1|w|G|1828
4V4J|1|w|A|1829
4V4J|1|w|C|1830
*
4V4J|1|w|G|1975
4V4J|1|w|U|1976
4V4J|1|w|A|1977
4V4J|1|w|A|1978
4V4J|1|w|C|1979

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