IL_5DM8_089

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

AUC*GGUUU

Length

8 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_089 not in the Motif Atlas

Geometric match to IL_7A0S_086

Geometric discrepancy: 0.1129

The information below is about IL_7A0S_086

Detailed Annotation

Major groove minor groove platform with extra cWW

Broad Annotation

Major groove minor groove platform with extra cWW

Motif group

IL_36931.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

26

Unit IDs

5DM8|1|X|A|2459
5DM8|1|X|U|2460
5DM8|1|X|C|2461
*
5DM8|1|X|G|2489
5DM8|1|X|G|2490
5DM8|1|X|U|2491
5DM8|1|X|U|2492
5DM8|1|X|U|2493

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain J

50S ribosomal protein L16

Chain T

50S ribosomal protein L27