HL_5DM8_026

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

AGCUAACU

Length

8 nucleotides

Bulged bases

5DM8|1|X|U|958, 5DM8|1|X|C|961

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

HL_5DM8_026 not in the Motif Atlas

Geometric match to HL_7A0S_026

Geometric discrepancy: 0.1183

The information below is about HL_7A0S_026

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_34789.5

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

428

Unit IDs

5DM8|1|X|A|955
5DM8|1|X|G|956
5DM8|1|X|C|957
5DM8|1|X|U|958
5DM8|1|X|A|959
5DM8|1|X|A|960
5DM8|1|X|C|961
5DM8|1|X|U|962

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain J

50S ribosomal protein L16

Chain Y

5S ribosomal RNA; 5S rRNA