J4_1NJM_004

3D structure

PDB id

1NJM (explore in PDB, NAKB, or RNA 3D Hub)

Description

The crystal structure of the 50S Large ribosomal subunit from Deinococcus radiodurans complexed with a tRNA acceptor stem mimic (ASM) and the antibiotic sparsomycin

Experimental method

X-RAY DIFFRACTION

Resolution

3.6 Å

Loop

Sequence

GGUUC*GGAAAG*CC*GCCCGUAC

Length

21 nucleotides

Bulged bases

1NJM|1|0|G|1324, 1NJM|1|0|U|1325, 1NJM|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_1NJM_004 not in the Motif Atlas

Homologous match to J4_4WF9_005

Geometric discrepancy: 0.351

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

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

Current chains

Chain 0

23S ribosomal RNA

Nearby chains