HL_5DM8_034

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

CGAACG

Length

6 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

HL_5DM8_034 not in the Motif Atlas

Geometric match to HL_7A0S_034

Geometric discrepancy: 0.1236

The information below is about HL_7A0S_034

Detailed Annotation

GNRA variation

Broad Annotation

GNRA variation

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|C|1363
5DM8|1|X|G|1364
5DM8|1|X|A|1365
5DM8|1|X|A|1366
5DM8|1|X|C|1367
5DM8|1|X|G|1368

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain 2

50S ribosomal protein L34

Chain U

50S ribosomal protein L28