J3_5DM8_011

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

CAC*GGUAAG*CGAGG

Length

14 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

J3_5DM8_011 not in the Motif Atlas

Geometric match to J3_7A0S_012

Geometric discrepancy: 0.15

The information below is about J3_7A0S_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_20574.1

Basepair signature

cWW-F-F-tWH-cWW-tSS-F-tHS-F-cWW

Number of instances in this motif group

1

Unit IDs

5DM8|1|X|C|2789
5DM8|1|X|A|2790
5DM8|1|X|C|2791
*
5DM8|1|X|G|2801
5DM8|1|X|G|2802
5DM8|1|X|U|2808
5DM8|1|X|A|2809
5DM8|1|X|A|2810
5DM8|1|X|G|2811
*
5DM8|1|X|C|2889
5DM8|1|X|G|2890
5DM8|1|X|A|2891
5DM8|1|X|G|2892
5DM8|1|X|G|2893

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain B

50S ribosomal protein L3

Chain Z

50S ribosomal protein L32