IL_1NJM_105

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

CCGAG*CGGCG

Length

10 nucleotides

Bulged bases

None detected

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_105 not in the Motif Atlas

Homologous match to IL_4WF9_093

Geometric discrepancy: 0.333

The information below is about IL_4WF9_093

Detailed Annotation

Double sheared with non-canonical cWW

Broad Annotation

Double sheared

Motif group

IL_87767.3

Basepair signature

cWW-L-R-tSH-tHS-cWW

Number of instances in this motif group

18

Unit IDs

1NJM|1|0|C|2445
1NJM|1|0|C|2446
1NJM|1|0|G|2447
1NJM|1|0|A|2448
1NJM|1|0|G|2449
*
1NJM|1|0|C|2459
1NJM|1|0|G|2460
1NJM|1|0|G|2461
1NJM|1|0|C|2462
1NJM|1|0|G|2463

Current chains

Chain 0

23S ribosomal RNA

Nearby chains

Chain K

50S ribosomal protein L16

Chain T

GENERAL STRESS PROTEIN CTC