J4_2D3O_009

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

GGUUC*GGAAAG*CC*GCCCGUAC

Length

21 nucleotides

Bulged bases

2D3O|1|0|U|1325, 2D3O|1|0|A|1354

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

J4_2D3O_009 not in the Motif Atlas

Homologous match to J4_4WF9_005

Geometric discrepancy: 0.1941

The information below is about J4_4WF9_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_77353.2

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

9

Unit IDs

2D3O|1|0|G|1323
2D3O|1|0|G|1324
2D3O|1|0|U|1325
2D3O|1|0|U|1326
2D3O|1|0|C|1327
*
2D3O|1|0|G|1351
2D3O|1|0|G|1352
2D3O|1|0|A|1353
2D3O|1|0|A|1354
2D3O|1|0|A|1355
2D3O|1|0|G|1356
*
2D3O|1|0|C|1417
2D3O|1|0|C|1418
*
2D3O|1|0|G|1613
2D3O|1|0|C|1614
2D3O|1|0|C|1615
2D3O|1|0|C|1616
2D3O|1|0|G|1617
2D3O|1|0|U|1618
2D3O|1|0|A|1619
2D3O|1|0|C|1620

Current chains

Chain 0

23S RIBOSOMAL RNA

Nearby chains

Chain 1

Trigger Factor

Chain R

50S RIBOSOMAL PROTEIN L23

Chain W

50S RIBOSOMAL PROTEIN L29