J4_1NJP_002

3D structure

PDB id

1NJP (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)

Experimental method

X-RAY DIFFRACTION

Resolution

3.5 Å

Loop

Sequence

CGAG*CGGAG*CGAGUC*GGCGGCAUUAG

Length

26 nucleotides

Bulged bases

1NJP|1|0|A|648, 1NJP|1|0|A|665, 1NJP|1|0|U|666, 1NJP|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_1NJP_002 not in the Motif Atlas

Homologous match to J4_7A0S_003

Geometric discrepancy: 0.5695

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

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

Current chains

Chain 0

23S ribosomal RNA

Nearby chains