IL_5DM8_006

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

GUUAGUAG*CGAACCC

Length

15 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

IL_5DM8_006 not in the Motif Atlas

Geometric match to IL_7A0S_007

Geometric discrepancy: 0.0823

The information below is about IL_7A0S_007

Detailed Annotation

8x7 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_62167.4

Basepair signature

cWW-cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

16

Unit IDs

5DM8|1|X|G|210
5DM8|1|X|U|211
5DM8|1|X|U|212
5DM8|1|X|A|213
5DM8|1|X|G|214
5DM8|1|X|U|215
5DM8|1|X|A|216
5DM8|1|X|G|217
*
5DM8|1|X|C|225
5DM8|1|X|G|226
5DM8|1|X|A|227
5DM8|1|X|A|228
5DM8|1|X|C|229
5DM8|1|X|C|230
5DM8|1|X|C|231

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain 3

50S ribosomal protein L35

Chain I

50S ribosomal protein L15