HL_5DM6_009

3D structure

PDB id

5DM6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the 50S ribosomal subunit from Deinococcus radiodurans

Experimental method

X-RAY DIFFRACTION

Resolution

2.9 Å

Loop

Sequence

CUGGAAAG

Length

8 nucleotides

Bulged bases

5DM6|1|X|A|311

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_5DM6_009 not in the Motif Atlas

Homologous match to HL_7A0S_010

Geometric discrepancy: 0.0922

The information below is about HL_7A0S_010

Detailed Annotation

T-loop with 1 bulged base

Broad Annotation

T-loop

Motif group

HL_13999.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

21

Unit IDs

5DM6|1|X|C|305
5DM6|1|X|U|306
5DM6|1|X|G|307
5DM6|1|X|G|308
5DM6|1|X|A|309
5DM6|1|X|A|310
5DM6|1|X|A|311
5DM6|1|X|G|312

Current chains

Chain X

23S ribosomal RNA

Nearby chains

Chain P

50S ribosomal protein L22

Chain R

50S ribosomal protein L24