IL_5DM8_065

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

UGCCAAC*GGACGUAUA

Length

16 nucleotides

Bulged bases

5DM8|1|X|C|1801, 5DM8|1|X|C|1816, 5DM8|1|X|U|1820

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_065 not in the Motif Atlas

Geometric match to IL_5J7L_313

Geometric discrepancy: 0.0738

The information below is about IL_5J7L_313

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_17069.5

Basepair signature

cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

Number of instances in this motif group

5

Unit IDs

5DM8|1|X|U|1798
5DM8|1|X|G|1799
5DM8|1|X|C|1800
5DM8|1|X|C|1801
5DM8|1|X|A|1802
5DM8|1|X|A|1803
5DM8|1|X|C|1804
*
5DM8|1|X|G|1813
5DM8|1|X|G|1814
5DM8|1|X|A|1815
5DM8|1|X|C|1816
5DM8|1|X|G|1817
5DM8|1|X|U|1818
5DM8|1|X|A|1819
5DM8|1|X|U|1820
5DM8|1|X|A|1821

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain A

50S ribosomal protein L2