IL_5DM8_017

3D structure

PDB id

5DM8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with orthoformimycin

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

UGAAAC*GCGGAG

Length

12 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_5DM8_017 not in the Motif Atlas

Geometric match to IL_7A0S_018

Geometric discrepancy: 0.0877

The information below is about IL_7A0S_018

Detailed Annotation

Triple sheared with non-canonical cWW

Broad Annotation

Triple sheared

Motif group

IL_29495.2

Basepair signature

cWW-tSH-tSH-tHS-tHS-cWW

Number of instances in this motif group

7

Unit IDs

5DM8|1|X|U|703
5DM8|1|X|G|704
5DM8|1|X|A|705
5DM8|1|X|A|706
5DM8|1|X|A|707
5DM8|1|X|C|708
*
5DM8|1|X|G|723
5DM8|1|X|C|724
5DM8|1|X|G|725
5DM8|1|X|G|726
5DM8|1|X|A|727
5DM8|1|X|G|728

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain A

50S ribosomal protein L2