IL_1NJM_150

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

AUC*GGUUU

Length

8 nucleotides

Bulged bases

1NJM|1|0|U|2470

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

IL_1NJM_150 not in the Motif Atlas

Homologous match to IL_4WF9_092

Geometric discrepancy: 0.3883

The information below is about IL_4WF9_092

Detailed Annotation

Major groove minor groove platform with extra cWW

Broad Annotation

Major groove minor groove platform with extra cWW

Motif group

IL_36931.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

26

Unit IDs

1NJM|1|0|A|2438
1NJM|1|0|U|2439
1NJM|1|0|C|2440
*
1NJM|1|0|G|2468
1NJM|1|0|G|2469
1NJM|1|0|U|2470
1NJM|1|0|U|2471
1NJM|1|0|U|2472

Current chains

Chain 0

23S ribosomal RNA

Nearby chains

Chain 5

tRNA acceptor stem mimic

Chain K

50S ribosomal protein L16