IL_1NJP_106

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

AUC*GGUUU

Length

8 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_1NJP_106 not in the Motif Atlas

Geometric match to IL_4V9F_028

Geometric discrepancy: 0.3547

The information below is about IL_4V9F_028

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_36931.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

26

Unit IDs

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