IL_5VJB_001

3D structure

PDB id

5VJB (explore in PDB, NAKB, or RNA 3D Hub)

Description

Guanidine-II riboswitch P2 hairpin dimer with 5-bromoU substitution from Pseudomonas aeruginosa

Experimental method

X-RAY DIFFRACTION

Resolution

2.1 Å

Loop

Sequence

CGG*C(5BU)G

Length

6 nucleotides

Bulged bases

None detected

QA status

Self-complementary:

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_5VJB_001 not in the Motif Atlas

Geometric match to IL_4KQ0_003

Geometric discrepancy: 0.0912

The information below is about IL_4KQ0_003

Detailed Annotation

Isolated cWH basepair

Broad Annotation

No text annotation

Motif group

IL_10892.3

Basepair signature

cWW-cHW-cWW

Number of instances in this motif group

61

Unit IDs

5VJB|1|A|C|2
5VJB|1|A|G|3
5VJB|1|A|G|4
*
5VJB|1|A|C|13
5VJB|1|A|5BU|14
5VJB|1|A|G|15

Current chains

Chain A

RNA (5'-R(*GP*CP*GP*GP*GP*GP*AP*CP*GP*AP*CP*CP*CP*(5BU)P*GP*C)-3')

Nearby chains

Chain B

RNA (5'-R(*GP*CP*GP*GP*GP*GP*AP*CP*GP*AP*CP*CP*CP*(5BU)P*GP*C)-3')