J5_2D3O_005

3D structure

PDB id

2D3O (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of Ribosome Binding Domain of the Trigger Factor on the 50S ribosomal subunit from D. radiodurans

Experimental method

X-RAY DIFFRACTION

Resolution

3.35 Å

Loop

Sequence

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

2D3O|1|0|U|2059, 2D3O|1|0|G|2407, 2D3O|1|0|G|2408, 2D3O|1|0|A|2409, 2D3O|1|0|U|2410

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

J5_2D3O_005 not in the Motif Atlas

Homologous match to J5_7A0S_007

Geometric discrepancy: 0.2641

The information below is about J5_7A0S_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.2

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

2D3O|1|0|U|2057
2D3O|1|0|U|2058
2D3O|1|0|U|2059
2D3O|1|0|A|2060
*
2D3O|1|0|U|2222
2D3O|1|0|U|2223
2D3O|1|0|U|2224
2D3O|1|0|G|2225
*
2D3O|1|0|C|2237
2D3O|1|0|G|2238
*
2D3O|1|0|C|2260
2D3O|1|0|G|2261
*
2D3O|1|0|C|2406
2D3O|1|0|G|2407
2D3O|1|0|G|2408
2D3O|1|0|A|2409
2D3O|1|0|U|2410
2D3O|1|0|A|2411
2D3O|1|0|A|2412
2D3O|1|0|A|2413
2D3O|1|0|A|2414

Current chains

Chain 0

23S RIBOSOMAL RNA

Nearby chains