J4_4V4J_004

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

CGAG*CGUAG*CGAG*CGUCUAG

Length

20 nucleotides

Bulged bases

4V4J|1|w|C|653, 4V4J|1|w|U|654

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_004 not in the Motif Atlas

Homologous match to J4_5J7L_020

Geometric discrepancy: 0.5804

The information below is about J4_5J7L_020

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_60168.1

Basepair signature

cWW-F-F-F-F-F-cWW-F-F-F-cWW-F-tSS-F-cWW

Number of instances in this motif group

2

Unit IDs

4V4J|1|w|C|601
4V4J|1|w|G|602
4V4J|1|w|A|603
4V4J|1|w|G|604
*
4V4J|1|w|C|624
4V4J|1|w|G|625
4V4J|1|w|U|626
4V4J|1|w|A|627
4V4J|1|w|G|628
*
4V4J|1|w|C|635
4V4J|1|w|G|636
4V4J|1|w|A|637
4V4J|1|w|G|638
*
4V4J|1|w|C|650
4V4J|1|w|G|651
4V4J|1|w|U|652
4V4J|1|w|C|653
4V4J|1|w|U|654
4V4J|1|w|A|655
4V4J|1|w|G|656

Current chains

Chain w

23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain D

50S ribosomal protein L4

Chain J

50S ribosomal protein L15

Chain a

50S ribosomal protein L35