HL_5DM8_009

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

CUGGAAAG

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

HL_5DM8_009 not in the Motif Atlas

Geometric match to HL_7A0S_010

Geometric discrepancy: 0.0931

The information below is about HL_7A0S_010

Detailed Annotation

T-loop with 1 bulged base

Broad Annotation

T-loop

Motif group

HL_13999.4

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

24

Unit IDs

5DM8|1|X|C|305
5DM8|1|X|U|306
5DM8|1|X|G|307
5DM8|1|X|G|308
5DM8|1|X|A|309
5DM8|1|X|A|310
5DM8|1|X|A|311
5DM8|1|X|G|312

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain P

50S ribosomal protein L22

Chain R

50S ribosomal protein L24