IL_5DM8_032

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

UCCCUAAA*UA

Length

10 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_032 not in the Motif Atlas

Geometric match to IL_7A0S_034

Geometric discrepancy: 0.1109

The information below is about IL_7A0S_034

Detailed Annotation

SSU/LSU pseudoknot

Broad Annotation

No text annotation

Motif group

IL_46868.1

Basepair signature

cWW-L-cWW-L-L-R-L-R

Number of instances in this motif group

5

Unit IDs

5DM8|1|X|U|1004
5DM8|1|X|C|1005
5DM8|1|X|C|1006
5DM8|1|X|C|1007
5DM8|1|X|U|1008
5DM8|1|X|A|1009
5DM8|1|X|A|1010
5DM8|1|X|A|1011
*
5DM8|1|X|U|1150
5DM8|1|X|A|1151

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain G

50S ribosomal protein L13

Chain N

50S ribosomal protein L20