J4_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

CGAG*CGGAG*CGAGUC*GGCGGCAUUAG

Length

26 nucleotides

Bulged bases

1NJM|1|0|A|648, 1NJM|1|0|A|665, 1NJM|1|0|U|666, 1NJM|1|0|U|667

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_002 not in the Motif Atlas

Homologous match to J4_7A0S_003

Geometric discrepancy: 0.5693

The information below is about J4_7A0S_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_98739.1

Basepair signature

cWW-F-F-F-F-cWW-F-F-F-F-F-F-F-F-cWW-cWW-F-F-F

Number of instances in this motif group

1

Unit IDs

1NJM|1|0|C|611
1NJM|1|0|G|612
1NJM|1|0|A|613
1NJM|1|0|G|614
*
1NJM|1|0|C|635
1NJM|1|0|G|636
1NJM|1|0|G|637
1NJM|1|0|A|638
1NJM|1|0|G|639
*
1NJM|1|0|C|646
1NJM|1|0|G|647
1NJM|1|0|A|648
1NJM|1|0|G|649
1NJM|1|0|U|650
1NJM|1|0|C|651
*
1NJM|1|0|G|659
1NJM|1|0|G|660
1NJM|1|0|C|661
1NJM|1|0|G|662
1NJM|1|0|G|663
1NJM|1|0|C|664
1NJM|1|0|A|665
1NJM|1|0|U|666
1NJM|1|0|U|667
1NJM|1|0|A|668
1NJM|1|0|G|669

Current chains

Chain 0

23S ribosomal RNA

Nearby chains