J3_5DM8_007

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

CAAG*CGCAAAC*GUG

Length

14 nucleotides

Bulged bases

5DM8|1|X|A|1609

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

J3_5DM8_007 not in the Motif Atlas

Geometric match to J3_7A0S_007

Geometric discrepancy: 0.0687

The information below is about J3_7A0S_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_47341.1

Basepair signature

cWW-tHH-F-tHW-tHS-tWW-cWW-cWW-F

Number of instances in this motif group

4

Unit IDs

5DM8|1|X|C|1306
5DM8|1|X|A|1307
5DM8|1|X|A|1308
5DM8|1|X|G|1309
*
5DM8|1|X|C|1605
5DM8|1|X|G|1606
5DM8|1|X|C|1607
5DM8|1|X|A|1608
5DM8|1|X|A|1609
5DM8|1|X|A|1610
5DM8|1|X|C|1611
*
5DM8|1|X|G|1620
5DM8|1|X|U|1621
5DM8|1|X|G|1622

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain 2

50S ribosomal protein L34