IL_5NQI_002

3D structure

PDB id

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

Description

E.coli 16S rRNA Sarcin-Ricin Loop containing a 5-hydroxymethylcytosine modification

Experimental method

X-RAY DIFFRACTION

Resolution

0.85 Å

Loop

Sequence

CUAGUAC*GGACCG

Length

13 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_5NQI_002 not in the Motif Atlas

Geometric match to IL_4NLF_001

Geometric discrepancy: 0.1111

The information below is about IL_4NLF_001

Detailed Annotation

Sarcin-Ricin target in LSU H95; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_16458.6

Basepair signature

cWW-L-R-L-R-cSH-tWH-tHS-cWW

Number of instances in this motif group

6

Unit IDs

5NQI|1|A|C|2652
5NQI|1|A|U|2653
5NQI|1|A|A|2654
5NQI|1|A|G|2655
5NQI|1|A|U|2656
5NQI|1|A|A|2657
5NQI|1|A|C|2658
*
5NQI|1|A|G|2663
5NQI|1|A|G|2664
5NQI|1|A|A|2665
5NQI|1|A|C|2666
5NQI|1|A|C|2667
5NQI|1|A|G|2668

Current chains

Chain A

E.Coli 27-mer SRL RNA

Nearby chains