HL_5DM8_032

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

GUGAGAAUC

Length

9 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_032 not in the Motif Atlas

Geometric match to HL_4WF9_032

Geometric discrepancy: 0.0977

The information below is about HL_4WF9_032

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_33597.4

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

137

Unit IDs

5DM8|1|X|G|1281
5DM8|1|X|U|1282
5DM8|1|X|G|1283
5DM8|1|X|A|1284
5DM8|1|X|G|1285
5DM8|1|X|A|1286
5DM8|1|X|A|1287
5DM8|1|X|U|1288
5DM8|1|X|C|1289

Current chains

Chain X

Deinococcus radiodurans R1 chromosome 1, complete sequence

Nearby chains

Chain K

50S ribosomal protein L17

Chain P

50S ribosomal protein L22