J5_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

CGACUU*AGAC*GUUC*GC*GCGGAUG

Length

23 nucleotides

Bulged bases

1NJP|1|0|U|824, 1NJP|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_1NJP_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

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

Current chains

Chain 0

23S ribosomal RNA

Nearby chains