J4_4V4J_002

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

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

4V4J|1|w|U|403, 4V4J|1|w|U|405

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_002 not in the Motif Atlas

Homologous match to J4_7A0S_001

Geometric discrepancy: 0.2389

The information below is about J4_7A0S_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_45801.6

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-F-cWW

Number of instances in this motif group

7

Unit IDs

4V4J|1|w|C|268
4V4J|1|w|U|269
*
4V4J|1|w|G|370
4V4J|1|w|A|371
4V4J|1|w|G|372
4V4J|1|w|U|373
4V4J|1|w|A|374
4V4J|1|w|C|375
*
4V4J|1|w|G|399
4V4J|1|w|G|400
4V4J|1|w|A|401
4V4J|1|w|A|402
4V4J|1|w|U|403
4V4J|1|w|C|404
4V4J|1|w|U|405
4V4J|1|w|G|406
*
4V4J|1|w|U|421
4V4J|1|w|A|422
4V4J|1|w|A|423
4V4J|1|w|G|424

Current chains

Chain w

23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain G

50S ribosomal protein L9

Chain V

LSU ribosomal protein L28P