IL_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

CUCAGUG*CUCAAG

Length

13 nucleotides

Bulged bases

5DM8|1|X|C|1141, 5DM8|1|X|A|1143

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

IL_5DM8_034 not in the Motif Atlas

Geometric match to IL_5J7L_280

Geometric discrepancy: 0.1974

The information below is about IL_5J7L_280

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_57188.5

Basepair signature

cWW-tWW-L-tWW-cWW-cSH

Number of instances in this motif group

5

Unit IDs

5DM8|1|X|C|1018
5DM8|1|X|U|1019
5DM8|1|X|C|1020
5DM8|1|X|A|1021
5DM8|1|X|G|1022
5DM8|1|X|U|1023
5DM8|1|X|G|1024
*
5DM8|1|X|C|1139
5DM8|1|X|U|1140
5DM8|1|X|C|1141
5DM8|1|X|A|1142
5DM8|1|X|A|1143
5DM8|1|X|G|1144

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain E

50S ribosomal protein L6

Chain G

50S ribosomal protein L13