IL_5DM8_085

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

UAC*GG

Length

5 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_085 not in the Motif Atlas

Geometric match to IL_1XJR_002

Geometric discrepancy: 0.2221

The information below is about IL_1XJR_002

Detailed Annotation

Major groove platform

Broad Annotation

No text annotation

Motif group

IL_48076.9

Basepair signature

cWW-cSH-cWW

Number of instances in this motif group

44

Unit IDs

5DM8|1|X|U|2401
5DM8|1|X|A|2402
5DM8|1|X|C|2403
*
5DM8|1|X|G|2414
5DM8|1|X|G|2415

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain 1

50S ribosomal protein L33

Chain 3

50S ribosomal protein L35

Chain I

50S ribosomal protein L15

Chain U

50S ribosomal protein L28