J5_4V4J_001

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

CGAUGAAG*CGAAUG*CG*CAC*GGG

Length

22 nucleotides

Bulged bases

4V4J|1|w|U|50

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

J5_4V4J_001 not in the Motif Atlas

Homologous match to J5_5J7L_013

Geometric discrepancy: 0.2527

The information below is about J5_5J7L_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

4V4J|1|w|C|47
4V4J|1|w|G|48
4V4J|1|w|A|49
4V4J|1|w|U|50
4V4J|1|w|G|51
4V4J|1|w|A|52
4V4J|1|w|A|53
4V4J|1|w|G|54
*
4V4J|1|w|C|116
4V4J|1|w|G|117
4V4J|1|w|A|118
4V4J|1|w|A|119
4V4J|1|w|U|120
4V4J|1|w|G|121
*
4V4J|1|w|C|130
4V4J|1|w|G|131
*
4V4J|1|w|C|148
4V4J|1|w|A|149
4V4J|1|w|C|150
*
4V4J|1|w|G|176
4V4J|1|w|G|177
4V4J|1|w|G|178

Current chains

Chain w

23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain R

50S ribosomal protein L23

Chain Z

50S ribosomal protein L34