J5_1NJP_004

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

ACGAAAAGACC*GGAUAACA*UCGAUGU*GUUCAG*CGGUCUCUAU

Length

42 nucleotides

Bulged bases

1NJP|1|0|C|2038, 1NJP|1|0|A|2045, 1NJP|1|0|A|2427, 1NJP|1|0|A|2566, 1NJP|1|0|U|2588, 1NJP|1|0|C|2591, 1NJP|1|0|U|2592, 1NJP|1|0|A|2593

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

1NJP|1|0|A|2037
1NJP|1|0|C|2038
1NJP|1|0|G|2039
1NJP|1|0|A|2040
1NJP|1|0|A|2041
1NJP|1|0|A|2042
1NJP|1|0|A|2043
1NJP|1|0|G|2044
1NJP|1|0|A|2045
1NJP|1|0|C|2046
1NJP|1|0|C|2047
*
1NJP|1|0|G|2425
1NJP|1|0|G|2426
1NJP|1|0|A|2427
1NJP|1|0|U|2428
1NJP|1|0|A|2429
1NJP|1|0|A|2430
1NJP|1|0|C|2431
1NJP|1|0|A|2432
*
1NJP|1|0|U|2479
1NJP|1|0|C|2480
1NJP|1|0|G|2481
1NJP|1|0|A|2482
1NJP|1|0|U|2483
1NJP|1|0|G|2484
1NJP|1|0|U|2485
*
1NJP|1|0|G|2562
1NJP|1|0|U|2563
1NJP|1|0|U|2564
1NJP|1|0|C|2565
1NJP|1|0|A|2566
1NJP|1|0|G|2567
*
1NJP|1|0|C|2585
1NJP|1|0|G|2586
1NJP|1|0|G|2587
1NJP|1|0|U|2588
1NJP|1|0|C|2589
1NJP|1|0|U|2590
1NJP|1|0|C|2591
1NJP|1|0|U|2592
1NJP|1|0|A|2593
1NJP|1|0|U|2594

Current chains

Chain 0

23S ribosomal RNA

Nearby chains

Chain 5

tRNA acceptor stem mimic