IL_4V4J_096

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

UG*CAAG

Length

6 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

IL_4V4J_096 not in the Motif Atlas

Homologous match to IL_4WF9_097

Geometric discrepancy: 0.198

The information below is about IL_4WF9_097

Detailed Annotation

Major groove platform with intercalation

Broad Annotation

Major groove platform

Motif group

IL_02555.1

Basepair signature

cWW-L-cWW

Number of instances in this motif group

9

Unit IDs

4V4J|1|w|U|2522
4V4J|1|w|G|2523
*
4V4J|1|w|C|2540
4V4J|1|w|A|2541
4V4J|1|w|A|2542
4V4J|1|w|G|2543

Current chains

Chain w

23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain H

50S ribosomal protein L13

Chain b

50S ribosomal protein L36