HL_4V4J_109

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

CAGCCUGGUAG

Length

11 nucleotides

Bulged bases

4V4J|1|z|C|16, 4V4J|1|z|G|18, 4V4J|1|z|G|19, 4V4J|1|z|U|20

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

HL_4V4J_109 not in the Motif Atlas

Homologous match to HL_6PMO_003

Geometric discrepancy: 0.2304

The information below is about HL_6PMO_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

4V4J|1|z|C|13
4V4J|1|z|A|14
4V4J|1|z|G|15
4V4J|1|z|C|16
4V4J|1|z|C|17
4V4J|1|z|U|17|||A
4V4J|1|z|G|18
4V4J|1|z|G|19
4V4J|1|z|U|20
4V4J|1|z|A|21
4V4J|1|z|G|22

Current chains

Chain z

P-site tRNAfMET

Nearby chains

Chain E

50S ribosomal protein L5

Chain w

Large subunit ribosomal RNA; LSU rRNA