J4_4V4J_011

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

CAAAG*CUGAC*GGG*CGG

Length

16 nucleotides

Bulged bases

4V4J|1|w|A|2288

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_011 not in the Motif Atlas

Homologous match to J4_9DFE_009

Geometric discrepancy: 0.3223

The information below is about J4_9DFE_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_04930.6

Basepair signature

cWW-F-F-tWW-tHH-cWW-cWW-cHW-cWW

Number of instances in this motif group

7

Unit IDs

4V4J|1|w|C|2285
4V4J|1|w|A|2286
4V4J|1|w|A|2287
4V4J|1|w|A|2288
4V4J|1|w|G|2289
*
4V4J|1|w|C|2343
4V4J|1|w|U|2344
4V4J|1|w|G|2345
4V4J|1|w|A|2346
4V4J|1|w|C|2347
*
4V4J|1|w|G|2370
4V4J|1|w|G|2371
4V4J|1|w|G|2372
*
4V4J|1|w|C|2381
4V4J|1|w|G|2382
4V4J|1|w|G|2383

Current chains

Chain w

23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain U

50S ribosomal protein L27

Chain a

50S ribosomal protein L35