J5_1NJM_002

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

CGACUU*AGAC*GUUC*GC*GCGGAUG

Length

23 nucleotides

Bulged bases

1NJM|1|0|U|824, 1NJM|1|0|U|1268

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_1NJM_002 not in the Motif Atlas

Homologous match to J5_7A0S_004

Geometric discrepancy: 0.2576

The information below is about J5_7A0S_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_74302.6

Basepair signature

cWW-tSH-tSS-tHW-F-cHS-F-tWS-cWW-cWW-F-cWW-cWW-F

Number of instances in this motif group

4

Unit IDs

1NJM|1|0|C|593
1NJM|1|0|G|594
1NJM|1|0|A|595
1NJM|1|0|C|596
1NJM|1|0|U|597
1NJM|1|0|U|598
*
1NJM|1|0|A|681
1NJM|1|0|G|682
1NJM|1|0|A|683
1NJM|1|0|C|684
*
1NJM|1|0|G|822
1NJM|1|0|U|823
1NJM|1|0|U|824
1NJM|1|0|C|825
*
1NJM|1|0|G|1209
1NJM|1|0|C|1210
*
1NJM|1|0|G|1263
1NJM|1|0|C|1264
1NJM|1|0|G|1265
1NJM|1|0|G|1266
1NJM|1|0|A|1267
1NJM|1|0|U|1268
1NJM|1|0|G|1269

Current chains

Chain 0

23S ribosomal RNA

Nearby chains