IL_5DM8_090

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

CCGAG*CGGCG

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_090 not in the Motif Atlas

Geometric match to IL_7A0S_087

Geometric discrepancy: 0.0996

The information below is about IL_7A0S_087

Detailed Annotation

Double sheared with non-canonical cWW

Broad Annotation

Double sheared

Motif group

IL_87767.3

Basepair signature

cWW-L-R-tSH-tHS-cWW

Number of instances in this motif group

18

Unit IDs

5DM8|1|X|C|2466
5DM8|1|X|C|2467
5DM8|1|X|G|2468
5DM8|1|X|A|2469
5DM8|1|X|G|2470
*
5DM8|1|X|C|2480
5DM8|1|X|G|2481
5DM8|1|X|G|2482
5DM8|1|X|C|2483
5DM8|1|X|G|2484

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain J

50S ribosomal protein L16